Tutorial_v0.9_1.ipynb

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 "cells": [
  {
   "cell_type": "code",
   "execution_count": 10,
   "id": "3c317de8",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "CPU times: user 17 µs, sys: 0 ns, total: 17 µs\n",
      "Wall time: 19.8 µs\n"
     ]
    }
   ],
   "source": [
    "%%time\n",
    "from omniflow_project.core.network import Network\n",
    "from omniflow_project._visual.visualize_network import NetworkVisualizer\n",
    "from omniflow_project._inputs.resources import Resources\n",
    "from omniflow_project._annotations.gene_ontology import Ontology\n",
    "import omnipath as op"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "7fe1b7d5",
   "metadata": {},
   "source": [
    "### First we define a set of node we are interested in"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "id": "79c09e13",
   "metadata": {},
   "outputs": [],
   "source": [
    "genes = [\"SRC\", \"NOTCH1\", \"FAK\", \"CDH1\", \"CDH2\", \"VIM\", \"MAP4K4\", \"LATS1\", \"LATS2\", \"PTK2B\"]"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "6a5b5adf",
   "metadata": {},
   "source": [
    "### Next we create a network using as input the gene set. Note that if no resource is specified, the default used resource by the package is omnipath.all_interactions()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "id": "fcf68a99-8454-41e3-8816-c3f976d04c0b",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Loading deafault omnipath all interactions\n"
     ]
    }
   ],
   "source": [
    "new_net1 = Network(genes)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "id": "9ac50c84",
   "metadata": {},
   "outputs": [
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       "<text text-anchor=\"middle\" x=\"30.55\" y=\"-14.3\" font-family=\"Times,serif\" font-size=\"14.00\">SRC</text>\n",
       "</g>\n",
       "<!-- NOTCH1 -->\n",
       "<g id=\"node2\" class=\"node\">\n",
       "<title>NOTCH1</title>\n",
       "<ellipse fill=\"lightgray\" stroke=\"black\" cx=\"131.55\" cy=\"-18\" rx=\"51.99\" ry=\"18\"/>\n",
       "<text text-anchor=\"middle\" x=\"131.55\" y=\"-14.3\" font-family=\"Times,serif\" font-size=\"14.00\">NOTCH1</text>\n",
       "</g>\n",
       "<!-- PTK2 -->\n",
       "<g id=\"node3\" class=\"node\">\n",
       "<title>PTK2</title>\n",
       "<ellipse fill=\"lightgray\" stroke=\"black\" cx=\"237.55\" cy=\"-18\" rx=\"36\" ry=\"18\"/>\n",
       "<text text-anchor=\"middle\" x=\"237.55\" y=\"-14.3\" font-family=\"Times,serif\" font-size=\"14.00\">PTK2</text>\n",
       "</g>\n",
       "<!-- CDH1 -->\n",
       "<g id=\"node4\" class=\"node\">\n",
       "<title>CDH1</title>\n",
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       "<!-- VIM -->\n",
       "<g id=\"node6\" class=\"node\">\n",
       "<title>VIM</title>\n",
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       "</g>\n",
       "<!-- MAP4K4 -->\n",
       "<g id=\"node7\" class=\"node\">\n",
       "<title>MAP4K4</title>\n",
       "<ellipse fill=\"lightgray\" stroke=\"black\" cx=\"609.55\" cy=\"-18\" rx=\"51.19\" ry=\"18\"/>\n",
       "<text text-anchor=\"middle\" x=\"609.55\" y=\"-14.3\" font-family=\"Times,serif\" font-size=\"14.00\">MAP4K4</text>\n",
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       "</g>\n",
       "<!-- LATS2 -->\n",
       "<g id=\"node9\" class=\"node\">\n",
       "<title>LATS2</title>\n",
       "<ellipse fill=\"lightgray\" stroke=\"black\" cx=\"819.55\" cy=\"-18\" rx=\"40.89\" ry=\"18\"/>\n",
       "<text text-anchor=\"middle\" x=\"819.55\" y=\"-14.3\" font-family=\"Times,serif\" font-size=\"14.00\">LATS2</text>\n",
       "</g>\n",
       "<!-- PTK2B -->\n",
       "<g id=\"node10\" class=\"node\">\n",
       "<title>PTK2B</title>\n",
       "<ellipse fill=\"lightgray\" stroke=\"black\" cx=\"920.55\" cy=\"-18\" rx=\"42.49\" ry=\"18\"/>\n",
       "<text text-anchor=\"middle\" x=\"920.55\" y=\"-14.3\" font-family=\"Times,serif\" font-size=\"14.00\">PTK2B</text>\n",
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     "metadata": {},
     "output_type": "display_data"
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   ],
   "source": [
    "visualizer = NetworkVisualizer(new_net1, color_by='effect')\n",
    "visualizer.render()"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "a2759581",
   "metadata": {},
   "source": [
    "### Now we can explore if the nodes are connected without introducing new intermidiate nodes"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "id": "a339705b",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "P12931 Q05397\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "Q14289 Q05397\n",
      "CPU times: user 496 ms, sys: 0 ns, total: 496 ms\n",
      "Wall time: 495 ms\n"
     ]
    }
   ],
   "source": [
    "%%time\n",
    "new_net1.connect_nodes(only_signed=True, consensus_only=True)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "id": "fad00bec-ba72-4943-bf1e-9c60f58f17a2",
   "metadata": {},
   "outputs": [
    {
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       "    .dataframe tbody tr th:only-of-type {\n",
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       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>Genesymbol</th>\n",
       "      <th>Uniprot</th>\n",
       "      <th>Type</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>SRC</td>\n",
       "      <td>P12931</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>NOTCH1</td>\n",
       "      <td>P46531</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>PTK2</td>\n",
       "      <td>Q05397</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>CDH1</td>\n",
       "      <td>P12830</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>CDH2</td>\n",
       "      <td>P19022</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>VIM</td>\n",
       "      <td>P08670</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>MAP4K4</td>\n",
       "      <td>O95819</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7</th>\n",
       "      <td>LATS1</td>\n",
       "      <td>O95835</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>8</th>\n",
       "      <td>LATS2</td>\n",
       "      <td>Q9NRM7</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>9</th>\n",
       "      <td>PTK2B</td>\n",
       "      <td>Q14289</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "  Genesymbol Uniprot Type\n",
       "0        SRC  P12931  NaN\n",
       "1     NOTCH1  P46531  NaN\n",
       "2       PTK2  Q05397  NaN\n",
       "3       CDH1  P12830  NaN\n",
       "4       CDH2  P19022  NaN\n",
       "5        VIM  P08670  NaN\n",
       "6     MAP4K4  O95819  NaN\n",
       "7      LATS1  O95835  NaN\n",
       "8      LATS2  Q9NRM7  NaN\n",
       "9      PTK2B  Q14289  NaN"
      ]
     },
     "execution_count": 6,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "new_net1.nodes"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "2fb5674d",
   "metadata": {},
   "source": [
    "### We can visualize the network with the following command. The network picture is also exported in the working repository, in pdf format"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "id": "db39112a",
   "metadata": {},
   "outputs": [
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       "<!-- PTK2 -->\n",
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       "<!-- SRC&#45;&gt;PTK2 -->\n",
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       "<title>SRC&#45;&gt;PTK2</title>\n",
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       "<polygon fill=\"green\" stroke=\"green\" points=\"38.04,-40.13 44.34,-31.6 34.1,-34.34 38.04,-40.13\"/>\n",
       "</g>\n",
       "<!-- CDH2 -->\n",
       "<g id=\"node3\" class=\"node\">\n",
       "<title>CDH2</title>\n",
       "<ellipse fill=\"lightgray\" stroke=\"black\" cx=\"51.8\" cy=\"-90\" rx=\"38.19\" ry=\"18\"/>\n",
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       "</g>\n",
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       "<title>SRC&#45;&gt;CDH2</title>\n",
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       "<polyline fill=\"none\" stroke=\"red\" points=\"51.8,-108.1 51.8,-113.1 \"/>\n",
       "</g>\n",
       "<!-- PTK2B -->\n",
       "<g id=\"node4\" class=\"node\">\n",
       "<title>PTK2B</title>\n",
       "<ellipse fill=\"lightgray\" stroke=\"black\" cx=\"150.8\" cy=\"-90\" rx=\"42.49\" ry=\"18\"/>\n",
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       "<!-- SRC&#45;&gt;PTK2B -->\n",
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       "<title>SRC&#45;&gt;PTK2B</title>\n",
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       "<!-- PTK2B&#45;&gt;PTK2 -->\n",
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       "<title>PTK2B&#45;&gt;PTK2</title>\n",
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       "<polygon fill=\"green\" stroke=\"green\" points=\"95.21,-37.54 85.31,-33.77 90.7,-42.9 95.21,-37.54\"/>\n",
       "</g>\n",
       "<!-- NOTCH1 -->\n",
       "<g id=\"node5\" class=\"node\">\n",
       "<title>NOTCH1</title>\n",
       "<ellipse fill=\"lightgray\" stroke=\"black\" cx=\"152.8\" cy=\"-162\" rx=\"51.99\" ry=\"18\"/>\n",
       "<text text-anchor=\"middle\" x=\"152.8\" y=\"-158.3\" font-family=\"Times,serif\" font-size=\"14.00\">NOTCH1</text>\n",
       "</g>\n",
       "<!-- CDH1 -->\n",
       "<g id=\"node6\" class=\"node\">\n",
       "<title>CDH1</title>\n",
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       "<text text-anchor=\"middle\" x=\"260.8\" y=\"-158.3\" font-family=\"Times,serif\" font-size=\"14.00\">CDH1</text>\n",
       "</g>\n",
       "<!-- VIM -->\n",
       "<g id=\"node7\" class=\"node\">\n",
       "<title>VIM</title>\n",
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       "<!-- MAP4K4 -->\n",
       "<g id=\"node8\" class=\"node\">\n",
       "<title>MAP4K4</title>\n",
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   "source": [
    "visualizer = NetworkVisualizer(new_net1, color_by='effect')\n",
    "visualizer.render()"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "b0d2063a",
   "metadata": {},
   "source": [
    "### We can try to connect the disconnected components using the following function. Be careful that the parameter maxlen is used to verify that in the network all the nodes have a distance < than maxlen. The parameter only_signed forces the algorithm to look for just signed interactions. Consensus retrieve those interactions with consensus between the references. Finally, connect_node_when_first_introduced, changes the base algorithm, making it look for possible connection between all the disconnected node in the network when a new bridge-gene is introduced in the network."
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "id": "9a07d77b",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "looking for paths in the network with length:  0  for node  SRC  and  NOTCH1\n",
      "looking for paths in the network with length:  1  for node  SRC  and  NOTCH1\n",
      "looking for paths in the network with length:  2  for node  SRC  and  NOTCH1\n",
      "looking for paths in the network with length:  3  for node  SRC  and  NOTCH1\n",
      "looking for paths in the network with length:  4  for node  SRC  and  NOTCH1\n",
      "looking for paths in the network with length:  5  for node  SRC  and  NOTCH1\n",
      "looking for paths in the network with length:  6  for node  SRC  and  NOTCH1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  SRC  and  NOTCH1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  SRC  and  NOTCH1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  SRC  and  NOTCH1\n",
      "[['SRC', 'CTNNB1', 'NOTCH1'], ['SRC', 'DAB1', 'NOTCH1']]\n",
      "P12931 P35222\n",
      "P35222 P46531\n",
      "P12931 O75553\n",
      "O75553 P46531\n",
      "P12931 Q05397\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P12931 P35222\n",
      "P12931 O75553\n",
      "P35222 P46531\n",
      "O75553 P46531\n",
      "Q14289 Q05397\n",
      "P12830 P35222\n",
      "P19022 P35222\n",
      "looking for paths in the network with length:  0  for node  SRC  and  PTK2\n",
      "looking for paths in the network with length:  1  for node  SRC  and  PTK2\n",
      "Found a path!\n",
      "[['SRC', 'PTK2']]\n",
      "looking for paths in the network with length:  0  for node  SRC  and  CDH1\n",
      "looking for paths in the network with length:  1  for node  SRC  and  CDH1\n",
      "looking for paths in the network with length:  2  for node  SRC  and  CDH1\n",
      "looking for paths in the network with length:  3  for node  SRC  and  CDH1\n",
      "looking for paths in the network with length:  4  for node  SRC  and  CDH1\n",
      "looking for paths in the network with length:  5  for node  SRC  and  CDH1\n",
      "looking for paths in the network with length:  6  for node  SRC  and  CDH1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  SRC  and  CDH1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  SRC  and  CDH1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  SRC  and  CDH1\n",
      "[['SRC', 'MET', 'CDH1'], ['SRC', 'PRKD1', 'CDH1'], ['SRC', 'CTNND1', 'CDH1']]\n",
      "P12931 P08581\n",
      "P08581 P12830\n",
      "P12931 Q15139\n",
      "Q15139 P12830\n",
      "P12931 O60716\n",
      "O60716 P12830\n",
      "P12931 Q05397\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P12931 P35222\n",
      "P12931 O75553\n",
      "P12931 P08581\n",
      "P12931 Q15139\n",
      "P12931 O60716\n",
      "P35222 P46531\n",
      "O75553 P46531\n",
      "Q14289 Q05397\n",
      "P08581 Q05397\n",
      "P12830 P35222\n",
      "P08581 P12830\n",
      "Q15139 P12830\n",
      "O60716 P12830\n",
      "P19022 P35222\n",
      "O60716 P19022\n",
      "Q15139 P35222\n",
      "looking for paths in the network with length:  0  for node  SRC  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  SRC  and  CDH2\n",
      "Found a path!\n",
      "[['SRC', 'CDH2']]\n",
      "looking for paths in the network with length:  0  for node  SRC  and  VIM\n",
      "looking for paths in the network with length:  1  for node  SRC  and  VIM\n",
      "looking for paths in the network with length:  2  for node  SRC  and  VIM\n",
      "looking for paths in the network with length:  3  for node  SRC  and  VIM\n",
      "looking for paths in the network with length:  4  for node  SRC  and  VIM\n",
      "looking for paths in the network with length:  5  for node  SRC  and  VIM\n",
      "looking for paths in the network with length:  6  for node  SRC  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  SRC  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  SRC  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  SRC  and  VIM\n",
      "[['SRC', 'PAK2', 'VIM']]\n",
      "P12931 Q13177\n",
      "Q13177 P08670\n",
      "P12931 Q05397\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P12931 P35222\n",
      "P12931 O75553\n",
      "P12931 P08581\n",
      "P12931 Q15139\n",
      "P12931 O60716\n",
      "P12931 Q13177\n",
      "P35222 P46531\n",
      "O75553 P46531\n",
      "Q14289 Q05397\n",
      "P08581 Q05397\n",
      "P12830 P35222\n",
      "P08581 P12830\n",
      "Q15139 P12830\n",
      "O60716 P12830\n",
      "P19022 P35222\n",
      "O60716 P19022\n",
      "Q13177 P08670\n",
      "Q15139 P35222\n",
      "looking for paths in the network with length:  0  for node  SRC  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  SRC  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  SRC  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  SRC  and  MAP4K4\n",
      "looking for paths in the network with length:  4  for node  SRC  and  MAP4K4\n",
      "looking for paths in the network with length:  5  for node  SRC  and  MAP4K4\n",
      "looking for paths in the network with length:  6  for node  SRC  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  SRC  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  SRC  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  SRC  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  SRC  and  MAP4K4\n",
      "[['SRC', 'MAPK8', 'MAP3K7', 'MAP4K4'], ['SRC', 'MAPK8', 'MAP3K1', 'MAP4K4']]\n",
      "P45983 P12931\n",
      "O43318 P45983\n",
      "O95819 O43318\n",
      "P45983 P12931\n",
      "Q13233 P45983\n",
      "O95819 Q13233\n",
      "P12931 Q05397\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P12931 P35222\n",
      "P12931 O75553\n",
      "P12931 P08581\n",
      "P12931 Q15139\n",
      "P12931 O60716\n",
      "P12931 Q13177\n",
      "P45983 P12931\n",
      "P35222 P46531\n",
      "O75553 P46531\n",
      "Q14289 Q05397\n",
      "P08581 Q05397\n",
      "P12830 P35222\n",
      "P08581 P12830\n",
      "Q15139 P12830\n",
      "O60716 P12830\n",
      "P19022 P35222\n",
      "O60716 P19022\n",
      "Q13177 P08670\n",
      "O95819 O43318\n",
      "O95819 Q13233\n",
      "Q15139 P35222\n",
      "O43318 P45983\n",
      "Q13233 P45983\n",
      "looking for paths in the network with length:  0  for node  SRC  and  LATS1\n",
      "looking for paths in the network with length:  1  for node  SRC  and  LATS1\n",
      "looking for paths in the network with length:  2  for node  SRC  and  LATS1\n",
      "looking for paths in the network with length:  3  for node  SRC  and  LATS1\n",
      "looking for paths in the network with length:  4  for node  SRC  and  LATS1\n",
      "looking for paths in the network with length:  5  for node  SRC  and  LATS1\n",
      "looking for paths in the network with length:  6  for node  SRC  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  SRC  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  SRC  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  SRC  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  SRC  and  LATS1\n",
      "[['SRC', 'RAF1', 'STK3', 'LATS1'], ['SRC', 'RAF1', 'STK4', 'LATS1'], ['SRC', 'PAK2', 'NF2', 'LATS1']]\n",
      "P12931 P04049\n",
      "P04049 Q13188\n",
      "Q13188 O95835\n",
      "P12931 P04049\n",
      "P04049 Q13043\n",
      "Q13043 O95835\n",
      "P12931 Q13177\n",
      "Q13177 P35240\n",
      "P35240 O95835\n",
      "P12931 Q05397\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P12931 P35222\n",
      "P12931 O75553\n",
      "P12931 P08581\n",
      "P12931 Q15139\n",
      "P12931 O60716\n",
      "P12931 Q13177\n",
      "P45983 P12931\n",
      "P12931 P04049\n",
      "P35222 P46531\n",
      "O75553 P46531\n",
      "Q14289 Q05397\n",
      "P08581 Q05397\n",
      "P12830 P35222\n",
      "P08581 P12830\n",
      "Q15139 P12830\n",
      "O60716 P12830\n",
      "P19022 P35222\n",
      "O60716 P19022\n",
      "Q13177 P08670\n",
      "O95819 O43318\n",
      "O95819 Q13233\n",
      "Q13188 O95835\n",
      "Q13043 O95835\n",
      "P35240 O95835\n",
      "Q13188 Q9NRM7\n",
      "Q13043 Q9NRM7\n",
      "P35240 Q9NRM7\n",
      "Q15139 P35222\n",
      "Q13177 P04049\n",
      "Q13177 P35240\n",
      "O43318 P45983\n",
      "Q13233 P45983\n",
      "P45983 Q13043\n",
      "P04049 Q13188\n",
      "P04049 Q13043\n",
      "P35240 Q13188\n",
      "P35240 Q13043\n",
      "looking for paths in the network with length:  0  for node  SRC  and  LATS2\n",
      "looking for paths in the network with length:  1  for node  SRC  and  LATS2\n",
      "looking for paths in the network with length:  2  for node  SRC  and  LATS2\n",
      "looking for paths in the network with length:  3  for node  SRC  and  LATS2\n",
      "Found a path!\n",
      "[['SRC', 'PAK2', 'NF2', 'LATS2'], ['SRC', 'RAF1', 'STK3', 'LATS2'], ['SRC', 'RAF1', 'STK4', 'LATS2']]\n",
      "looking for paths in the network with length:  0  for node  SRC  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  SRC  and  PTK2B\n",
      "Found a path!\n",
      "[['SRC', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  3  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  4  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  5  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  6  for node  NOTCH1  and  PTK2\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  NOTCH1  and  PTK2\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  NOTCH1  and  PTK2\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  NOTCH1  and  PTK2\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  NOTCH1  and  PTK2\n",
      "[['NOTCH1', 'SMAD3', 'BCAR1', 'PTK2'], ['NOTCH1', 'LCK', 'PTPRH', 'PTK2']]\n",
      "P84022 P46531\n",
      "P56945 P84022\n",
      "Q05397 P56945\n",
      "P06239 P46531\n",
      "Q9HD43 P06239\n",
      "Q9HD43 Q05397\n",
      "P12931 Q05397\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P12931 P35222\n",
      "P12931 O75553\n",
      "P12931 P08581\n",
      "P12931 Q15139\n",
      "P12931 O60716\n",
      "P12931 Q13177\n",
      "P45983 P12931\n",
      "P12931 P04049\n",
      "P12931 P56945\n",
      "Q9HD43 P12931\n",
      "P35222 P46531\n",
      "O75553 P46531\n",
      "P84022 P46531\n",
      "P06239 P46531\n",
      "Q14289 Q05397\n",
      "P08581 Q05397\n",
      "Q05397 P56945\n",
      "Q05397 Q9HD43\n",
      "Q9HD43 Q05397\n",
      "P12830 P35222\n",
      "P08581 P12830\n",
      "Q15139 P12830\n",
      "O60716 P12830\n",
      "P19022 P35222\n",
      "O60716 P19022\n",
      "Q13177 P08670\n",
      "O95819 O43318\n",
      "O95819 Q13233\n",
      "Q13188 O95835\n",
      "Q13043 O95835\n",
      "P35240 O95835\n",
      "Q13188 Q9NRM7\n",
      "Q13043 Q9NRM7\n",
      "P35240 Q9NRM7\n",
      "Q15139 P35222\n",
      "Q13177 P04049\n",
      "Q13177 P35240\n",
      "O43318 P45983\n",
      "Q13233 P45983\n",
      "P45983 Q13043\n",
      "P45983 P84022\n",
      "O43318 P84022\n",
      "P04049 Q13188\n",
      "P04049 Q13043\n",
      "P06239 P04049\n",
      "P35240 Q13188\n",
      "P35240 Q13043\n",
      "P56945 P84022\n",
      "Q9HD43 P56945\n",
      "Q9HD43 P06239\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  CDH1\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  CDH1\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  CDH1\n",
      "Found a path!\n",
      "[['NOTCH1', 'CTNNB1', 'CDH1']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  CDH2\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  CDH2\n",
      "Found a path!\n",
      "[['NOTCH1', 'CTNNB1', 'CDH2']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  3  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  4  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  5  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  6  for node  NOTCH1  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  NOTCH1  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  NOTCH1  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  NOTCH1  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  NOTCH1  and  MAP4K4\n",
      "Found a path!\n",
      "[['NOTCH1', 'SMAD3', 'MAP3K7', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  LATS1\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  LATS1\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  LATS1\n",
      "looking for paths in the network with length:  3  for node  NOTCH1  and  LATS1\n",
      "looking for paths in the network with length:  4  for node  NOTCH1  and  LATS1\n",
      "looking for paths in the network with length:  5  for node  NOTCH1  and  LATS1\n",
      "looking for paths in the network with length:  6  for node  NOTCH1  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  NOTCH1  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  NOTCH1  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  NOTCH1  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  NOTCH1  and  LATS1\n",
      "[['NOTCH1', 'SMAD3', 'WWTR1', 'LATS1'], ['NOTCH1', 'CTNNB1', 'YAP1', 'LATS1'], ['NOTCH1', 'RUNX2', 'WWTR1', 'LATS1'], ['NOTCH1', 'RUNX2', 'YAP1', 'LATS1']]\n",
      "P84022 P46531\n",
      "Q9GZV5 P84022\n",
      "O95835 Q9GZV5\n",
      "P35222 P46531\n",
      "P46937 P35222\n",
      "O95835 P46937\n",
      "Q13950 P46531\n",
      "Q9GZV5 Q13950\n",
      "O95835 Q9GZV5\n",
      "Q13950 P46531\n",
      "P46937 Q13950\n",
      "O95835 P46937\n",
      "P12931 Q05397\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P12931 P35222\n",
      "P12931 O75553\n",
      "P12931 P08581\n",
      "P12931 Q15139\n",
      "P12931 O60716\n",
      "P12931 Q13177\n",
      "P45983 P12931\n",
      "P12931 P04049\n",
      "P12931 P56945\n",
      "Q9HD43 P12931\n",
      "P35222 P46531\n",
      "O75553 P46531\n",
      "P84022 P46531\n",
      "P06239 P46531\n",
      "Q13950 P46531\n",
      "Q14289 Q05397\n",
      "P08581 Q05397\n",
      "Q05397 P56945\n",
      "Q05397 Q9HD43\n",
      "Q9HD43 Q05397\n",
      "P12830 P35222\n",
      "P08581 P12830\n",
      "Q15139 P12830\n",
      "O60716 P12830\n",
      "P19022 P35222\n",
      "O60716 P19022\n",
      "Q13177 P08670\n",
      "O95819 O43318\n",
      "O95819 Q13233\n",
      "Q13188 O95835\n",
      "Q13043 O95835\n",
      "P35240 O95835\n",
      "O95835 Q9GZV5\n",
      "O95835 P46937\n",
      "Q13188 Q9NRM7\n",
      "Q13043 Q9NRM7\n",
      "P35240 Q9NRM7\n",
      "Q9NRM7 Q9GZV5\n",
      "Q9NRM7 P46937\n",
      "Q15139 P35222\n",
      "P46937 P35222\n",
      "Q13177 P04049\n",
      "Q13177 P35240\n",
      "O43318 P45983\n",
      "Q13233 P45983\n",
      "P45983 Q13043\n",
      "P45983 P84022\n",
      "O43318 P84022\n",
      "P04049 Q13188\n",
      "P04049 Q13043\n",
      "P06239 P04049\n",
      "P35240 Q13188\n",
      "P35240 Q13043\n",
      "P56945 P84022\n",
      "Q9GZV5 P84022\n",
      "P84022 Q13950\n",
      "Q9HD43 P56945\n",
      "Q9HD43 P06239\n",
      "Q9GZV5 Q13950\n",
      "P46937 Q13950\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  LATS2\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  LATS2\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  LATS2\n",
      "looking for paths in the network with length:  3  for node  NOTCH1  and  LATS2\n",
      "Found a path!\n",
      "[['NOTCH1', 'SMAD3', 'WWTR1', 'LATS2'], ['NOTCH1', 'CTNNB1', 'YAP1', 'LATS2'], ['NOTCH1', 'RUNX2', 'WWTR1', 'LATS2'], ['NOTCH1', 'RUNX2', 'YAP1', 'LATS2']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  4  for node  NOTCH1  and  PTK2B\n",
      "Found a path!\n",
      "[['NOTCH1', 'SMAD3', 'BCAR1', 'PTK2', 'PTK2B'], ['NOTCH1', 'LCK', 'PTPRH', 'PTK2', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  CDH1\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  CDH1\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  CDH1\n",
      "looking for paths in the network with length:  3  for node  PTK2  and  CDH1\n",
      "looking for paths in the network with length:  4  for node  PTK2  and  CDH1\n",
      "Found a path!\n",
      "[['PTK2', 'PTPRH', 'SRC', 'PRKD1', 'CDH1'], ['PTK2', 'PTPRH', 'SRC', 'CTNND1', 'CDH1'], ['PTK2', 'PTPRH', 'SRC', 'MET', 'CDH1']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  CDH2\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  CDH2\n",
      "looking for paths in the network with length:  3  for node  PTK2  and  CDH2\n",
      "Found a path!\n",
      "[['PTK2', 'PTPRH', 'SRC', 'CDH2']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  VIM\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  VIM\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  VIM\n",
      "looking for paths in the network with length:  3  for node  PTK2  and  VIM\n",
      "looking for paths in the network with length:  4  for node  PTK2  and  VIM\n",
      "Found a path!\n",
      "[['PTK2', 'PTPRH', 'SRC', 'PAK2', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  PTK2  and  MAP4K4\n",
      "looking for paths in the network with length:  4  for node  PTK2  and  MAP4K4\n",
      "Found a path!\n",
      "[['PTK2', 'SRC', 'MAPK8', 'MAP3K7', 'MAP4K4'], ['PTK2', 'SRC', 'MAPK8', 'MAP3K1', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  LATS1\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  LATS1\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  LATS1\n",
      "looking for paths in the network with length:  3  for node  PTK2  and  LATS1\n",
      "looking for paths in the network with length:  4  for node  PTK2  and  LATS1\n",
      "looking for paths in the network with length:  5  for node  PTK2  and  LATS1\n",
      "Found a path!\n",
      "[['PTK2', 'PTPRH', 'SRC', 'PAK2', 'NF2', 'LATS1'], ['PTK2', 'PTPRH', 'SRC', 'RAF1', 'STK3', 'LATS1'], ['PTK2', 'PTPRH', 'SRC', 'RAF1', 'STK4', 'LATS1'], ['PTK2', 'PTPRH', 'LCK', 'RAF1', 'STK3', 'LATS1'], ['PTK2', 'PTPRH', 'LCK', 'RAF1', 'STK4', 'LATS1']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  LATS2\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  LATS2\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  LATS2\n",
      "looking for paths in the network with length:  3  for node  PTK2  and  LATS2\n",
      "looking for paths in the network with length:  4  for node  PTK2  and  LATS2\n",
      "looking for paths in the network with length:  5  for node  PTK2  and  LATS2\n",
      "Found a path!\n",
      "[['PTK2', 'PTPRH', 'SRC', 'PAK2', 'NF2', 'LATS2'], ['PTK2', 'PTPRH', 'SRC', 'RAF1', 'STK3', 'LATS2'], ['PTK2', 'PTPRH', 'SRC', 'RAF1', 'STK4', 'LATS2'], ['PTK2', 'PTPRH', 'LCK', 'RAF1', 'STK3', 'LATS2'], ['PTK2', 'PTPRH', 'LCK', 'RAF1', 'STK4', 'LATS2']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  PTK2B\n",
      "Found a path!\n",
      "[['PTK2', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  3  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  4  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  5  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  6  for node  CDH1  and  CDH2\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  CDH1  and  CDH2\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  CDH1  and  CDH2\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  CDH1  and  CDH2\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  CDH1  and  CDH2\n",
      "[['CDH1', 'EGFR', 'CTNND1', 'CDH2']]\n",
      "P12830 P00533\n",
      "P00533 O60716\n",
      "O60716 P19022\n",
      "P12931 Q05397\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P12931 P35222\n",
      "P12931 O75553\n",
      "P12931 P08581\n",
      "P12931 Q15139\n",
      "P12931 O60716\n",
      "P12931 Q13177\n",
      "P45983 P12931\n",
      "P12931 P04049\n",
      "P12931 P56945\n",
      "Q9HD43 P12931\n",
      "P12931 P00533\n",
      "P35222 P46531\n",
      "O75553 P46531\n",
      "P84022 P46531\n",
      "P06239 P46531\n",
      "Q13950 P46531\n",
      "Q14289 Q05397\n",
      "P08581 Q05397\n",
      "Q05397 P56945\n",
      "Q05397 Q9HD43\n",
      "Q9HD43 Q05397\n",
      "P00533 Q05397\n",
      "P12830 P35222\n",
      "P08581 P12830\n",
      "Q15139 P12830\n",
      "O60716 P12830\n",
      "P12830 P00533\n",
      "P19022 P35222\n",
      "O60716 P19022\n",
      "Q13177 P08670\n",
      "O95819 O43318\n",
      "O95819 Q13233\n",
      "Q13188 O95835\n",
      "Q13043 O95835\n",
      "P35240 O95835\n",
      "O95835 Q9GZV5\n",
      "O95835 P46937\n",
      "Q13188 Q9NRM7\n",
      "Q13043 Q9NRM7\n",
      "P35240 Q9NRM7\n",
      "Q9NRM7 Q9GZV5\n",
      "Q9NRM7 P46937\n",
      "Q14289 P00533\n",
      "Q15139 P35222\n",
      "P46937 P35222\n",
      "P00533 P35222\n",
      "Q15139 P00533\n",
      "P00533 O60716\n",
      "Q13177 P04049\n",
      "Q13177 P35240\n",
      "O43318 P45983\n",
      "Q13233 P45983\n",
      "P45983 Q13043\n",
      "P45983 P84022\n",
      "O43318 P84022\n",
      "P04049 Q13188\n",
      "P04049 Q13043\n",
      "P06239 P04049\n",
      "P35240 Q13188\n",
      "P35240 Q13043\n",
      "P56945 P84022\n",
      "Q9GZV5 P84022\n",
      "P84022 Q13950\n",
      "Q9HD43 P56945\n",
      "P00533 P56945\n",
      "Q9HD43 P06239\n",
      "Q9GZV5 Q13950\n",
      "P46937 Q13950\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  3  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  4  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  5  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  6  for node  CDH1  and  VIM\n",
      "Found a path!\n",
      "[['CDH1', 'EGFR', 'PTK2', 'PTPRH', 'SRC', 'PAK2', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  4  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  5  for node  CDH1  and  MAP4K4\n",
      "Found a path!\n",
      "[['CDH1', 'CTNND1', 'SRC', 'MAPK8', 'MAP3K7', 'MAP4K4'], ['CDH1', 'CTNND1', 'SRC', 'MAPK8', 'MAP3K1', 'MAP4K4'], ['CDH1', 'PRKD1', 'SRC', 'MAPK8', 'MAP3K7', 'MAP4K4'], ['CDH1', 'PRKD1', 'SRC', 'MAPK8', 'MAP3K1', 'MAP4K4'], ['CDH1', 'MET', 'SRC', 'MAPK8', 'MAP3K7', 'MAP4K4'], ['CDH1', 'MET', 'SRC', 'MAPK8', 'MAP3K1', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  LATS1\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  LATS1\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  LATS1\n",
      "looking for paths in the network with length:  3  for node  CDH1  and  LATS1\n",
      "looking for paths in the network with length:  4  for node  CDH1  and  LATS1\n",
      "looking for paths in the network with length:  5  for node  CDH1  and  LATS1\n",
      "looking for paths in the network with length:  6  for node  CDH1  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  CDH1  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  CDH1  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  CDH1  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  CDH1  and  LATS1\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  LATS2\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  LATS2\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  LATS2\n",
      "looking for paths in the network with length:  3  for node  CDH1  and  LATS2\n",
      "looking for paths in the network with length:  4  for node  CDH1  and  LATS2\n",
      "looking for paths in the network with length:  5  for node  CDH1  and  LATS2\n",
      "looking for paths in the network with length:  6  for node  CDH1  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  CDH1  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  CDH1  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  CDH1  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  CDH1  and  LATS2\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  CDH1  and  PTK2B\n",
      "Found a path!\n",
      "[['CDH1', 'CTNND1', 'EGFR', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  3  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  4  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  5  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  6  for node  CDH2  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  CDH2  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  CDH2  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  CDH2  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  CDH2  and  MAP4K4\n",
      "looking for paths in the network with length:  4  for node  CDH2  and  MAP4K4\n",
      "Found a path!\n",
      "[['CDH2', 'SRC', 'MAPK8', 'MAP3K7', 'MAP4K4'], ['CDH2', 'SRC', 'MAPK8', 'MAP3K1', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  LATS1\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  LATS1\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  LATS1\n",
      "looking for paths in the network with length:  3  for node  CDH2  and  LATS1\n",
      "looking for paths in the network with length:  4  for node  CDH2  and  LATS1\n",
      "looking for paths in the network with length:  5  for node  CDH2  and  LATS1\n",
      "looking for paths in the network with length:  6  for node  CDH2  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  CDH2  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  CDH2  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  CDH2  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  CDH2  and  LATS1\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  LATS2\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  LATS2\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  LATS2\n",
      "looking for paths in the network with length:  3  for node  CDH2  and  LATS2\n",
      "looking for paths in the network with length:  4  for node  CDH2  and  LATS2\n",
      "looking for paths in the network with length:  5  for node  CDH2  and  LATS2\n",
      "looking for paths in the network with length:  6  for node  CDH2  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  CDH2  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  CDH2  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  CDH2  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  CDH2  and  LATS2\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  CDH2  and  PTK2B\n",
      "Found a path!\n",
      "[['CDH2', 'CTNND1', 'EGFR', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  4  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  5  for node  VIM  and  MAP4K4\n",
      "Found a path!\n",
      "[['VIM', 'PAK2', 'SRC', 'MAPK8', 'MAP3K7', 'MAP4K4'], ['VIM', 'PAK2', 'SRC', 'MAPK8', 'MAP3K1', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  VIM  and  LATS1\n",
      "looking for paths in the network with length:  1  for node  VIM  and  LATS1\n",
      "looking for paths in the network with length:  2  for node  VIM  and  LATS1\n",
      "looking for paths in the network with length:  3  for node  VIM  and  LATS1\n",
      "looking for paths in the network with length:  4  for node  VIM  and  LATS1\n",
      "looking for paths in the network with length:  5  for node  VIM  and  LATS1\n",
      "looking for paths in the network with length:  6  for node  VIM  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  VIM  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  VIM  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  VIM  and  LATS1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  VIM  and  LATS1\n",
      "looking for paths in the network with length:  0  for node  VIM  and  LATS2\n",
      "looking for paths in the network with length:  1  for node  VIM  and  LATS2\n",
      "looking for paths in the network with length:  2  for node  VIM  and  LATS2\n",
      "looking for paths in the network with length:  3  for node  VIM  and  LATS2\n",
      "looking for paths in the network with length:  4  for node  VIM  and  LATS2\n",
      "looking for paths in the network with length:  5  for node  VIM  and  LATS2\n",
      "looking for paths in the network with length:  6  for node  VIM  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  VIM  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  VIM  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  VIM  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  VIM  and  LATS2\n",
      "looking for paths in the network with length:  0  for node  VIM  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  VIM  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  VIM  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  VIM  and  PTK2B\n",
      "looking for paths in the network with length:  4  for node  VIM  and  PTK2B\n",
      "looking for paths in the network with length:  5  for node  VIM  and  PTK2B\n",
      "Found a path!\n",
      "[['VIM', 'PAK2', 'SRC', 'PTPRH', 'PTK2', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  MAP4K4  and  LATS1\n",
      "looking for paths in the network with length:  1  for node  MAP4K4  and  LATS1\n",
      "looking for paths in the network with length:  2  for node  MAP4K4  and  LATS1\n",
      "looking for paths in the network with length:  3  for node  MAP4K4  and  LATS1\n",
      "looking for paths in the network with length:  4  for node  MAP4K4  and  LATS1\n",
      "Found a path!\n",
      "[['MAP4K4', 'MAP3K7', 'MAPK8', 'STK4', 'LATS1'], ['MAP4K4', 'MAP3K1', 'MAPK8', 'STK4', 'LATS1']]\n",
      "looking for paths in the network with length:  0  for node  MAP4K4  and  LATS2\n",
      "looking for paths in the network with length:  1  for node  MAP4K4  and  LATS2\n",
      "looking for paths in the network with length:  2  for node  MAP4K4  and  LATS2\n",
      "looking for paths in the network with length:  3  for node  MAP4K4  and  LATS2\n",
      "looking for paths in the network with length:  4  for node  MAP4K4  and  LATS2\n",
      "Found a path!\n",
      "[['MAP4K4', 'MAP3K7', 'MAPK8', 'STK4', 'LATS2'], ['MAP4K4', 'MAP3K1', 'MAPK8', 'STK4', 'LATS2']]\n",
      "looking for paths in the network with length:  0  for node  MAP4K4  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  MAP4K4  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  MAP4K4  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  MAP4K4  and  PTK2B\n",
      "looking for paths in the network with length:  4  for node  MAP4K4  and  PTK2B\n",
      "Found a path!\n",
      "[['MAP4K4', 'MAP3K7', 'MAPK8', 'SRC', 'PTK2B'], ['MAP4K4', 'MAP3K1', 'MAPK8', 'SRC', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  LATS1  and  LATS2\n",
      "looking for paths in the network with length:  1  for node  LATS1  and  LATS2\n",
      "looking for paths in the network with length:  2  for node  LATS1  and  LATS2\n",
      "looking for paths in the network with length:  3  for node  LATS1  and  LATS2\n",
      "looking for paths in the network with length:  4  for node  LATS1  and  LATS2\n",
      "looking for paths in the network with length:  5  for node  LATS1  and  LATS2\n",
      "looking for paths in the network with length:  6  for node  LATS1  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  LATS1  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  LATS1  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  LATS1  and  LATS2\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  LATS1  and  LATS2\n",
      "looking for paths in the network with length:  0  for node  LATS1  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  LATS1  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  LATS1  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  LATS1  and  PTK2B\n",
      "looking for paths in the network with length:  4  for node  LATS1  and  PTK2B\n",
      "looking for paths in the network with length:  5  for node  LATS1  and  PTK2B\n",
      "looking for paths in the network with length:  6  for node  LATS1  and  PTK2B\n",
      "Found a path!\n",
      "[['LATS1', 'STK3', 'RAF1', 'LCK', 'PTPRH', 'PTK2', 'PTK2B'], ['LATS1', 'STK3', 'RAF1', 'SRC', 'PTPRH', 'PTK2', 'PTK2B'], ['LATS1', 'STK4', 'RAF1', 'LCK', 'PTPRH', 'PTK2', 'PTK2B'], ['LATS1', 'STK4', 'RAF1', 'SRC', 'PTPRH', 'PTK2', 'PTK2B'], ['LATS1', 'NF2', 'PAK2', 'SRC', 'PTPRH', 'PTK2', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  LATS2  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  LATS2  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  LATS2  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  LATS2  and  PTK2B\n",
      "looking for paths in the network with length:  4  for node  LATS2  and  PTK2B\n",
      "looking for paths in the network with length:  5  for node  LATS2  and  PTK2B\n",
      "looking for paths in the network with length:  6  for node  LATS2  and  PTK2B\n",
      "Found a path!\n",
      "[['LATS2', 'STK3', 'RAF1', 'LCK', 'PTPRH', 'PTK2', 'PTK2B'], ['LATS2', 'STK3', 'RAF1', 'SRC', 'PTPRH', 'PTK2', 'PTK2B'], ['LATS2', 'STK4', 'RAF1', 'LCK', 'PTPRH', 'PTK2', 'PTK2B'], ['LATS2', 'STK4', 'RAF1', 'SRC', 'PTPRH', 'PTK2', 'PTK2B'], ['LATS2', 'NF2', 'PAK2', 'SRC', 'PTPRH', 'PTK2', 'PTK2B']]\n",
      "CPU times: user 1min 50s, sys: 22.9 ms, total: 1min 50s\n",
      "Wall time: 1min 50s\n"
     ]
    }
   ],
   "source": [
    "%%time\n",
    "new_net1.complete_connection(mode=\"ALL\", maxlen=6, k_mean=\"tight\", only_signed=True, connect_node_when_first_introduced=True, consensus=True)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 9,
   "id": "152b9434",
   "metadata": {},
   "outputs": [
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       "<title>MAPK8&#45;&gt;STK4</title>\n",
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       "<title>MAP3K7&#45;&gt;MAPK8</title>\n",
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       "<title>MAP4K4</title>\n",
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       "<!-- RAF1&#45;&gt;STK3 -->\n",
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       "<title>RAF1&#45;&gt;STK3</title>\n",
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       "<!-- LATS1 -->\n",
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       "<title>LATS1</title>\n",
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       "<title>STK3&#45;&gt;LATS2</title>\n",
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       "<title>NF2&#45;&gt;LATS1</title>\n",
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       "<g id=\"edge44\" class=\"edge\">\n",
       "<title>LCK&#45;&gt;NOTCH1</title>\n",
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       "<!-- LCK&#45;&gt;RAF1 -->\n",
       "<g id=\"edge52\" class=\"edge\">\n",
       "<title>LCK&#45;&gt;RAF1</title>\n",
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       "<!-- PTPRH&#45;&gt;SRC -->\n",
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       "<title>PTPRH&#45;&gt;SRC</title>\n",
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       "<!-- PTPRH&#45;&gt;PTK2 -->\n",
       "<g id=\"edge46\" class=\"edge\">\n",
       "<title>PTPRH&#45;&gt;PTK2</title>\n",
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       "<!-- PTPRH&#45;&gt;BCAR1 -->\n",
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       "<!-- PTPRH&#45;&gt;LCK -->\n",
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       "</g>\n",
       "<!-- WWTR1&#45;&gt;SMAD3 -->\n",
       "<g id=\"edge54\" class=\"edge\">\n",
       "<title>WWTR1&#45;&gt;SMAD3</title>\n",
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       "<title>WWTR1&#45;&gt;RUNX2</title>\n",
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       "<!-- YAP1&#45;&gt;CTNNB1 -->\n",
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       "<title>YAP1&#45;&gt;CTNNB1</title>\n",
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       "<!-- YAP1&#45;&gt;RUNX2 -->\n",
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       "<title>YAP1&#45;&gt;RUNX2</title>\n",
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       "</g>\n",
       "<!-- RUNX2&#45;&gt;NOTCH1 -->\n",
       "<g id=\"edge58\" class=\"edge\">\n",
       "<title>RUNX2&#45;&gt;NOTCH1</title>\n",
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       "</g>\n",
       "<!-- EGFR&#45;&gt;PTK2 -->\n",
       "<g id=\"edge67\" class=\"edge\">\n",
       "<title>EGFR&#45;&gt;PTK2</title>\n",
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       "</g>\n",
       "<!-- EGFR&#45;&gt;BCAR1 -->\n",
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       "<title>EGFR&#45;&gt;BCAR1</title>\n",
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      "text/plain": [
       "<graphviz.graphs.Digraph at 0x7eff85a51b40>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "visualizer1 = NetworkVisualizer(new_net1, color_by='effect')\n",
    "visualizer1.render(output_file='network2')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "id": "9540f33d-68f8-4c98-b68e-3e3d1497467e",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "   Genesymbol  in_tissue\n",
      "0         SRC       True\n",
      "1      NOTCH1       True\n",
      "2        PTK2       True\n",
      "3        CDH1       True\n",
      "4        CDH2       True\n",
      "5         VIM       True\n",
      "6      MAP4K4       True\n",
      "7       LATS1       True\n",
      "8       LATS2       True\n",
      "9       PTK2B       True\n",
      "10     CTNNB1       True\n",
      "11       DAB1       True\n",
      "12        MET       True\n",
      "13      PRKD1       True\n",
      "14     CTNND1       True\n",
      "15       PAK2       True\n",
      "16      MAPK8       True\n",
      "17     MAP3K7       True\n",
      "18     MAP3K1       True\n",
      "19       RAF1       True\n",
      "20       STK3       True\n",
      "21       STK4       True\n",
      "22        NF2       True\n",
      "23      SMAD3       True\n",
      "24      BCAR1       True\n",
      "25        LCK       True\n",
      "26      PTPRH       True\n",
      "27      WWTR1       True\n",
      "28       YAP1       True\n",
      "29      RUNX2       True\n",
      "30       EGFR       True\n"
     ]
    }
   ],
   "source": [
    "annot = Ontology()\n",
    "#user_defined_tissue = 'breast cancer'\n",
    "results_df = annot.check_tissue_annotations(genes_df = new_net1.nodes, tissue = 'colorectal cancer')\n",
    "print(results_df)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "id": "fbd98405-045a-4316-8174-e96e9a71d9ee",
   "metadata": {},
   "outputs": [
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       "<title>SRC</title>\n",
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       "<!-- PTK2 -->\n",
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       "<!-- SRC&#45;&gt;PTK2 -->\n",
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       "<title>NOTCH1</title>\n",
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       "<!-- CTNNB1&#45;&gt;NOTCH1 -->\n",
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       "<title>CDH1</title>\n",
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       "<!-- CDH1&#45;&gt;CTNNB1 -->\n",
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       "<title>CDH1&#45;&gt;CTNNB1</title>\n",
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       "<title>MET&#45;&gt;PTK2</title>\n",
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       "<!-- PAK2&#45;&gt;VIM -->\n",
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       "<!-- PAK2&#45;&gt;RAF1 -->\n",
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       "<title>PAK2&#45;&gt;RAF1</title>\n",
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       "<!-- PAK2&#45;&gt;NF2 -->\n",
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       "<title>PAK2&#45;&gt;NF2</title>\n",
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       "<title>MAPK8</title>\n",
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       "<!-- MAPK8&#45;&gt;SRC -->\n",
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       "<title>STK4</title>\n",
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       "<!-- MAPK8&#45;&gt;STK4 -->\n",
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       "<title>MAPK8&#45;&gt;SMAD3</title>\n",
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       "<title>MAP3K7</title>\n",
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       "<!-- MAP3K7&#45;&gt;MAPK8 -->\n",
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       "<title>MAP3K7&#45;&gt;MAPK8</title>\n",
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       "<title>MAP4K4</title>\n",
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      "text/plain": [
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     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "network_visualizer = NetworkVisualizer(new_net1)\n",
    "network_visualizer.tissue_mapping(results_df)\n",
    "network_visualizer.render()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 14,
   "id": "6762228b-7e6c-4711-a07a-660c77f406e5",
   "metadata": {},
   "outputs": [
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       "<!-- EGFR&#45;&gt;BCAR1 -->\n",
       "<g id=\"edge8\" class=\"edge\">\n",
       "<title>EGFR&#45;&gt;BCAR1</title>\n",
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       "</g>\n",
       "<!-- SRC -->\n",
       "<g id=\"node4\" class=\"node\">\n",
       "<title>SRC</title>\n",
       "<ellipse fill=\"none\" stroke=\"black\" cx=\"166\" cy=\"-162\" rx=\"30.59\" ry=\"18\"/>\n",
       "<text text-anchor=\"middle\" x=\"166\" y=\"-158.3\" font-family=\"Times,serif\" font-size=\"14.00\">SRC</text>\n",
       "</g>\n",
       "<!-- SRC&#45;&gt;EGFR -->\n",
       "<g id=\"edge3\" class=\"edge\">\n",
       "<title>SRC&#45;&gt;EGFR</title>\n",
       "<path fill=\"none\" stroke=\"green\" d=\"M176.43,-144.76C181.86,-136.32 188.62,-125.8 194.72,-116.31\"/>\n",
       "<polygon fill=\"green\" stroke=\"green\" points=\"197.84,-117.94 200.3,-107.63 191.95,-114.15 197.84,-117.94\"/>\n",
       "</g>\n",
       "<!-- PTK2B -->\n",
       "<g id=\"node6\" class=\"node\">\n",
       "<title>PTK2B</title>\n",
       "<ellipse fill=\"none\" stroke=\"black\" cx=\"257\" cy=\"-162\" rx=\"42.49\" ry=\"18\"/>\n",
       "<text text-anchor=\"middle\" x=\"257\" y=\"-158.3\" font-family=\"Times,serif\" font-size=\"14.00\">PTK2B</text>\n",
       "</g>\n",
       "<!-- PTK2B&#45;&gt;EGFR -->\n",
       "<g id=\"edge5\" class=\"edge\">\n",
       "<title>PTK2B&#45;&gt;EGFR</title>\n",
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       "<polygon fill=\"green\" stroke=\"green\" points=\"230.24,-113.9 221.82,-107.47 224.39,-117.75 230.24,-113.9\"/>\n",
       "</g>\n",
       "<!-- PRKD1 -->\n",
       "<g id=\"node8\" class=\"node\">\n",
       "<title>PRKD1</title>\n",
       "<ellipse fill=\"none\" stroke=\"black\" cx=\"361\" cy=\"-162\" rx=\"44.39\" ry=\"18\"/>\n",
       "<text text-anchor=\"middle\" x=\"361\" y=\"-158.3\" font-family=\"Times,serif\" font-size=\"14.00\">PRKD1</text>\n",
       "</g>\n",
       "<!-- PRKD1&#45;&gt;EGFR -->\n",
       "<g id=\"edge7\" class=\"edge\">\n",
       "<title>PRKD1&#45;&gt;EGFR</title>\n",
       "<path fill=\"none\" stroke=\"green\" d=\"M333.13,-148C308.68,-136.59 273,-119.93 246.51,-107.57\"/>\n",
       "<polygon fill=\"green\" stroke=\"green\" points=\"247.74,-104.29 237.2,-103.23 244.78,-110.63 247.74,-104.29\"/>\n",
       "</g>\n",
       "</g>\n",
       "</svg>\n"
      ],
      "text/plain": [
       "<graphviz.graphs.Digraph at 0x7eff6a727310>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "visualizer = NetworkVisualizer(new_net1, predefined_node=\"EGFR\",color_by='effect')\n",
    "visualizer.render()"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "57cabbaa",
   "metadata": {},
   "source": [
    "### We can access the network object edges to explore which interactions are in our network"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 15,
   "id": "0aa6d076-5310-462e-aa0e-f69da822b962",
   "metadata": {},
   "outputs": [
    {
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       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>source</th>\n",
       "      <th>target</th>\n",
       "      <th>Type</th>\n",
       "      <th>Effect</th>\n",
       "      <th>References</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>6821</th>\n",
       "      <td>P12931</td>\n",
       "      <td>Q05397</td>\n",
       "      <td>None</td>\n",
       "      <td>stimulation</td>\n",
       "      <td>Adhesome:10085298;Adhesome:10592173;Adhesome:1...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>32968</th>\n",
       "      <td>P12931</td>\n",
       "      <td>P19022</td>\n",
       "      <td>None</td>\n",
       "      <td>inhibition</td>\n",
       "      <td>ACSN:15782139;ACSN:16371504;ACSN:16492141;ACSN...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5154</th>\n",
       "      <td>P12931</td>\n",
       "      <td>Q14289</td>\n",
       "      <td>None</td>\n",
       "      <td>stimulation</td>\n",
       "      <td>Adhesome:10329689;Adhesome:10521452;Adhesome:1...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>44795</th>\n",
       "      <td>Q14289</td>\n",
       "      <td>Q05397</td>\n",
       "      <td>None</td>\n",
       "      <td>stimulation</td>\n",
       "      <td>Adhesome:16760434;HPRD:16760434;KEA:12960434;K...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>11582</th>\n",
       "      <td>P12931</td>\n",
       "      <td>P35222</td>\n",
       "      <td>None</td>\n",
       "      <td>stimulation</td>\n",
       "      <td>ACSN:10593980;ACSN:12123611;ACSN:15782139;ACSN...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
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       "    <tr>\n",
       "      <th>67482</th>\n",
       "      <td>P00533</td>\n",
       "      <td>Q05397</td>\n",
       "      <td>None</td>\n",
       "      <td>stimulation</td>\n",
       "      <td>ACSN:10545505;ACSN:16919435;ACSN:17496910;ACSN...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7631</th>\n",
       "      <td>Q14289</td>\n",
       "      <td>P00533</td>\n",
       "      <td>None</td>\n",
       "      <td>stimulation</td>\n",
       "      <td>CA1:11274221;HPRD:10777553;InnateDB:14963038;S...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>73973</th>\n",
       "      <td>P00533</td>\n",
       "      <td>P35222</td>\n",
       "      <td>None</td>\n",
       "      <td>stimulation</td>\n",
       "      <td>ACSN:12040186;ACSN:14585353;ACSN:17496910;ACSN...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2907</th>\n",
       "      <td>Q15139</td>\n",
       "      <td>P00533</td>\n",
       "      <td>None</td>\n",
       "      <td>stimulation</td>\n",
       "      <td>CancerCellMap:10523301;CancerCellMap:2984676;C...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>78053</th>\n",
       "      <td>P00533</td>\n",
       "      <td>P56945</td>\n",
       "      <td>None</td>\n",
       "      <td>inhibition</td>\n",
       "      <td>KEA:17570479;ProtMapper:15951569;SPIKE_LC:1714...</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>71 rows × 5 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "       source  target  Type       Effect  \\\n",
       "6821   P12931  Q05397  None  stimulation   \n",
       "32968  P12931  P19022  None   inhibition   \n",
       "5154   P12931  Q14289  None  stimulation   \n",
       "44795  Q14289  Q05397  None  stimulation   \n",
       "11582  P12931  P35222  None  stimulation   \n",
       "...       ...     ...   ...          ...   \n",
       "67482  P00533  Q05397  None  stimulation   \n",
       "7631   Q14289  P00533  None  stimulation   \n",
       "73973  P00533  P35222  None  stimulation   \n",
       "2907   Q15139  P00533  None  stimulation   \n",
       "78053  P00533  P56945  None   inhibition   \n",
       "\n",
       "                                              References  \n",
       "6821   Adhesome:10085298;Adhesome:10592173;Adhesome:1...  \n",
       "32968  ACSN:15782139;ACSN:16371504;ACSN:16492141;ACSN...  \n",
       "5154   Adhesome:10329689;Adhesome:10521452;Adhesome:1...  \n",
       "44795  Adhesome:16760434;HPRD:16760434;KEA:12960434;K...  \n",
       "11582  ACSN:10593980;ACSN:12123611;ACSN:15782139;ACSN...  \n",
       "...                                                  ...  \n",
       "67482  ACSN:10545505;ACSN:16919435;ACSN:17496910;ACSN...  \n",
       "7631   CA1:11274221;HPRD:10777553;InnateDB:14963038;S...  \n",
       "73973  ACSN:12040186;ACSN:14585353;ACSN:17496910;ACSN...  \n",
       "2907   CancerCellMap:10523301;CancerCellMap:2984676;C...  \n",
       "78053  KEA:17570479;ProtMapper:15951569;SPIKE_LC:1714...  \n",
       "\n",
       "[71 rows x 5 columns]"
      ]
     },
     "execution_count": 15,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "#We can access to the edges of the network\n",
    "new_net1.edges"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "2a250d98",
   "metadata": {},
   "source": [
    "# If the all_interaction database of omnipath is not sufficient, we can change it or extend it. To do it, we can use the Resources object:"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 10,
   "id": "794f4de1",
   "metadata": {},
   "outputs": [],
   "source": [
    "interactions = op.interactions.AllInteractions.get() #first we get the interactions from omnipath"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "aeec437c",
   "metadata": {},
   "source": [
    "### Then, we can add allInteractions in the Resources object"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 11,
   "id": "d45b7920",
   "metadata": {},
   "outputs": [],
   "source": [
    "resources = Resources()\n",
    "resources.add_database(interactions)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "id": "8dfed589",
   "metadata": {},
   "outputs": [
    {
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       "      <td>False</td>\n",
       "      <td>True</td>\n",
       "      <td>True</td>\n",
       "      <td>False</td>\n",
       "      <td>13</td>\n",
       "      <td>DIP:19897728;HPRD:12732636;IntAct:19897728;Lit...</td>\n",
       "      <td>DIP;HPRD;IntAct;Lit-BM-17;TRIP</td>\n",
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       "      <td>5</td>\n",
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       "      <td>False</td>\n",
       "      <td>False</td>\n",
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       "      <td>10433504;7651358;8564227</td>\n",
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       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>10</td>\n",
       "      <td>Cellinker:10646498;Cellinker:10683202;Cellinke...</td>\n",
       "      <td>Cellinker;Guide2Pharma_Cellinker</td>\n",
       "      <td>small_molecule_protein</td>\n",
       "      <td>2</td>\n",
       "      <td>1</td>\n",
       "      <td>10</td>\n",
       "      <td>10646498;10683202;10821780;11030734;11218067;1...</td>\n",
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       "      <td>1</td>\n",
       "      <td>Cellinker:26349500</td>\n",
       "      <td>Cellinker;Guide2Pharma_Cellinker</td>\n",
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       "      <td>2</td>\n",
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       "      <td>26349500</td>\n",
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       "      <th>276177</th>\n",
       "      <td>643961</td>\n",
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       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>False</td>\n",
       "      <td>1</td>\n",
       "      <td>Cellinker:20802798</td>\n",
       "      <td>Cellinker;Guide2Pharma_Cellinker</td>\n",
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       "      <td>2</td>\n",
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       "      <td>1</td>\n",
       "      <td>20802798</td>\n",
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       "      <td>448457</td>\n",
       "      <td>Q13258</td>\n",
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       "      <td>small_molecule_protein</td>\n",
       "      <td>2</td>\n",
       "      <td>1</td>\n",
       "      <td>4</td>\n",
       "      <td>10448933;16604093;7642548;9579725</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>276179 rows × 16 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "        source  target  is_directed  is_stimulation  is_inhibition  \\\n",
       "0       P0DP23  P48995         True           False           True   \n",
       "1       P0DP25  P48995         True           False           True   \n",
       "2       P0DP24  P48995         True           False           True   \n",
       "3       Q03135  P48995         True            True          False   \n",
       "4       P14416  P48995         True            True          False   \n",
       "...        ...     ...          ...             ...            ...   \n",
       "276174  439260  P35348         True           False          False   \n",
       "276175    5202  Q13639         True           False          False   \n",
       "276176    6305  Q6DWJ6         True           False          False   \n",
       "276177  643961  Q9GZU1         True           False          False   \n",
       "276178  448457  Q13258         True           False          False   \n",
       "\n",
       "        consensus_direction  consensus_stimulation  consensus_inhibition  \\\n",
       "0                      True                  False                  True   \n",
       "1                      True                  False                  True   \n",
       "2                      True                  False                  True   \n",
       "3                      True                   True                 False   \n",
       "4                      True                   True                 False   \n",
       "...                     ...                    ...                   ...   \n",
       "276174                False                  False                 False   \n",
       "276175                False                  False                 False   \n",
       "276176                False                  False                 False   \n",
       "276177                False                  False                 False   \n",
       "276178                False                  False                 False   \n",
       "\n",
       "        curation_effort                                         references  \\\n",
       "0                     3          TRIP:11290752;TRIP:11983166;TRIP:12601176   \n",
       "1                     3          TRIP:11290752;TRIP:11983166;TRIP:12601176   \n",
       "2                     3          TRIP:11290752;TRIP:11983166;TRIP:12601176   \n",
       "3                    13  DIP:19897728;HPRD:12732636;IntAct:19897728;Lit...   \n",
       "4                     1                                      TRIP:18261457   \n",
       "...                 ...                                                ...   \n",
       "276174                3  Cellinker:10433504;Cellinker:7651358;Cellinker...   \n",
       "276175               10  Cellinker:10646498;Cellinker:10683202;Cellinke...   \n",
       "276176                1                                 Cellinker:26349500   \n",
       "276177                1                                 Cellinker:20802798   \n",
       "276178                4  Cellinker:10448933;Cellinker:16604093;Cellinke...   \n",
       "\n",
       "                                 sources                    type  n_sources  \\\n",
       "0                                   TRIP      post_translational          1   \n",
       "1                                   TRIP      post_translational          1   \n",
       "2                                   TRIP      post_translational          1   \n",
       "3         DIP;HPRD;IntAct;Lit-BM-17;TRIP      post_translational          5   \n",
       "4                                   TRIP      post_translational          1   \n",
       "...                                  ...                     ...        ...   \n",
       "276174  Cellinker;Guide2Pharma_Cellinker  small_molecule_protein          2   \n",
       "276175  Cellinker;Guide2Pharma_Cellinker  small_molecule_protein          2   \n",
       "276176  Cellinker;Guide2Pharma_Cellinker  small_molecule_protein          2   \n",
       "276177  Cellinker;Guide2Pharma_Cellinker  small_molecule_protein          2   \n",
       "276178  Cellinker;Guide2Pharma_Cellinker  small_molecule_protein          2   \n",
       "\n",
       "        n_primary_sources n_references  \\\n",
       "0                       1            3   \n",
       "1                       1            3   \n",
       "2                       1            3   \n",
       "3                       5            8   \n",
       "4                       1            1   \n",
       "...                   ...          ...   \n",
       "276174                  1            3   \n",
       "276175                  1           10   \n",
       "276176                  1            1   \n",
       "276177                  1            1   \n",
       "276178                  1            4   \n",
       "\n",
       "                                      references_stripped  \n",
       "0                              11290752;11983166;12601176  \n",
       "1                              11290752;11983166;12601176  \n",
       "2                              11290752;11983166;12601176  \n",
       "3       10980191;12732636;14551243;16822931;18430726;1...  \n",
       "4                                                18261457  \n",
       "...                                                   ...  \n",
       "276174                           10433504;7651358;8564227  \n",
       "276175  10646498;10683202;10821780;11030734;11218067;1...  \n",
       "276176                                           26349500  \n",
       "276177                                           20802798  \n",
       "276178                  10448933;16604093;7642548;9579725  \n",
       "\n",
       "[276179 rows x 16 columns]"
      ]
     },
     "execution_count": 12,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "resources.interactions"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "d3dca809",
   "metadata": {},
   "source": [
    "### Now we can explore another database we are interested in, for example, the ligand receptor one"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "id": "829de33a",
   "metadata": {},
   "outputs": [],
   "source": [
    "extra = op.interactions.LigRecExtra.get()"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "fc585a3c",
   "metadata": {},
   "source": [
    "### And then we add it to the Resources object"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 14,
   "id": "91ae2cef",
   "metadata": {},
   "outputs": [],
   "source": [
    "resources.add_database(extra, reset_index=True)"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "0e6e1986",
   "metadata": {},
   "source": [
    "### Now we create the network with a similar list of genes but specifying the Resource object"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 15,
   "id": "7401c535",
   "metadata": {},
   "outputs": [],
   "source": [
    "genes = [\"SRC\", \"NOTCH1\", \"PTK2\", \"CDH1\", \"CDH2\", \"VIM\", \"MAP4K4\", \"PTK2B\", \"COL1A1\"]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 17,
   "id": "60fcff6d",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "CPU times: user 22.9 ms, sys: 3.98 ms, total: 26.9 ms\n",
      "Wall time: 25.7 ms\n"
     ]
    }
   ],
   "source": [
    "%%time\n",
    "new_net1 = Network(genes, resources=resources.interactions)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 18,
   "id": "370180cc",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "P12931 Q05397\n",
      "P12830 P12931\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P02452 P12931\n",
      "P46531 P19022\n",
      "P46531 P02452\n",
      "Q14289 Q05397\n",
      "CPU times: user 1.34 s, sys: 19.9 ms, total: 1.36 s\n",
      "Wall time: 1.36 s\n"
     ]
    }
   ],
   "source": [
    "%%time\n",
    "new_net1.connect_nodes(only_signed=True, consensus_only=True)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 19,
   "id": "8ffecf5c",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "looking for paths in the network with length:  0  for node  SRC  and  NOTCH1\n",
      "looking for paths in the network with length:  1  for node  SRC  and  NOTCH1\n",
      "looking for paths in the network with length:  2  for node  SRC  and  NOTCH1\n",
      "Found a path!\n",
      "[['SRC', 'COL1A1', 'NOTCH1']]\n",
      "looking for paths in the network with length:  0  for node  SRC  and  PTK2\n",
      "looking for paths in the network with length:  1  for node  SRC  and  PTK2\n",
      "Found a path!\n",
      "[['SRC', 'PTK2']]\n",
      "looking for paths in the network with length:  0  for node  SRC  and  CDH1\n",
      "looking for paths in the network with length:  1  for node  SRC  and  CDH1\n",
      "Found a path!\n",
      "[['SRC', 'CDH1']]\n",
      "looking for paths in the network with length:  0  for node  SRC  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  SRC  and  CDH2\n",
      "Found a path!\n",
      "[['SRC', 'CDH2']]\n",
      "looking for paths in the network with length:  0  for node  SRC  and  VIM\n",
      "looking for paths in the network with length:  1  for node  SRC  and  VIM\n",
      "looking for paths in the network with length:  2  for node  SRC  and  VIM\n",
      "looking for paths in the network with length:  3  for node  SRC  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  SRC  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  SRC  and  VIM\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  SRC  and  VIM\n",
      "[['SRC', 'TCF7L2', 'VIM'], ['SRC', 'NFKB1', 'VIM'], ['SRC', 'HNF4A', 'VIM'], ['SRC', 'HIPK2', 'VIM'], ['SRC', 'STAT5A', 'VIM']]\n",
      "P12931 Q9NQB0\n",
      "Q9NQB0 P08670\n",
      "P12931 P19838\n",
      "P19838 P08670\n",
      "P12931 P41235\n",
      "P41235 P08670\n",
      "P12931 Q9H2X6\n",
      "Q9H2X6 P08670\n",
      "P12931 P42229\n",
      "P42229 P08670\n",
      "P12931 Q05397\n",
      "P12830 P12931\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P02452 P12931\n",
      "P12931 Q9NQB0\n",
      "P12931 P19838\n",
      "P12931 P41235\n",
      "P41235 P12931\n",
      "P12931 Q9H2X6\n",
      "P12931 P42229\n",
      "P46531 P19022\n",
      "P46531 P02452\n",
      "P46531 P19838\n",
      "Q14289 Q05397\n",
      "Q9NQB0 P08670\n",
      "P19838 P08670\n",
      "P41235 P08670\n",
      "Q9H2X6 P08670\n",
      "P42229 P08670\n",
      "P19838 P02452\n",
      "P41235 Q9NQB0\n",
      "P19838 P42229\n",
      "looking for paths in the network with length:  0  for node  SRC  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  SRC  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  SRC  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  SRC  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  SRC  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  SRC  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  SRC  and  MAP4K4\n",
      "[['SRC', 'EPHB1', 'MAP4K4'], ['SRC', 'PPARG', 'MAP4K4']]\n",
      "P12931 P54762\n",
      "P54762 O95819\n",
      "P12931 P37231\n",
      "P37231 O95819\n",
      "P12931 Q05397\n",
      "P12830 P12931\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P02452 P12931\n",
      "P12931 Q9NQB0\n",
      "P12931 P19838\n",
      "P12931 P41235\n",
      "P41235 P12931\n",
      "P12931 Q9H2X6\n",
      "P12931 P42229\n",
      "P12931 P54762\n",
      "P54762 P12931\n",
      "P12931 P37231\n",
      "P46531 P19022\n",
      "P46531 P02452\n",
      "P46531 P19838\n",
      "P46531 P37231\n",
      "Q14289 Q05397\n",
      "P54762 Q05397\n",
      "P37231 P12830\n",
      "P37231 P19022\n",
      "Q9NQB0 P08670\n",
      "P19838 P08670\n",
      "P41235 P08670\n",
      "Q9H2X6 P08670\n",
      "P42229 P08670\n",
      "P54762 O95819\n",
      "P37231 O95819\n",
      "P19838 P02452\n",
      "P41235 Q9NQB0\n",
      "P19838 P42229\n",
      "P37231 P19838\n",
      "P37231 P42229\n",
      "looking for paths in the network with length:  0  for node  SRC  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  SRC  and  PTK2B\n",
      "Found a path!\n",
      "[['SRC', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  SRC  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  SRC  and  COL1A1\n",
      "Found a path!\n",
      "[['SRC', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  3  for node  NOTCH1  and  PTK2\n",
      "Found a path!\n",
      "[['NOTCH1', 'COL1A1', 'SRC', 'PTK2']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  CDH1\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  CDH1\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  CDH1\n",
      "Found a path!\n",
      "[['NOTCH1', 'PPARG', 'CDH1']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  CDH2\n",
      "Found a path!\n",
      "[['NOTCH1', 'CDH2']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  VIM\n",
      "Found a path!\n",
      "[['NOTCH1', 'NFKB1', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  MAP4K4\n",
      "Found a path!\n",
      "[['NOTCH1', 'PPARG', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  NOTCH1  and  PTK2B\n",
      "Found a path!\n",
      "[['NOTCH1', 'COL1A1', 'SRC', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  COL1A1\n",
      "Found a path!\n",
      "[['NOTCH1', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  CDH1\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  CDH1\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  CDH1\n",
      "Found a path!\n",
      "[['PTK2', 'SRC', 'CDH1']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  CDH2\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  CDH2\n",
      "looking for paths in the network with length:  3  for node  PTK2  and  CDH2\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  PTK2  and  CDH2\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  PTK2  and  CDH2\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  PTK2  and  CDH2\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  PTK2  and  CDH2\n",
      "[['PTK2', 'ZYX', 'SRC', 'CDH2'], ['PTK2', 'STAT1', 'SMAD7', 'CDH2'], ['PTK2', 'STAT1', 'ABL1', 'CDH2'], ['PTK2', 'STAT1', 'JUN', 'CDH2'], ['PTK2', 'STAT1', 'MYC', 'CDH2'], ['PTK2', 'STAT1', 'COMPLEX:P19838_Q04206', 'CDH2'], ['PTK2', 'STAT1', 'WT1', 'CDH2'], ['PTK2', 'STAT1', 'MET', 'CDH2'], ['PTK2', 'ACTN3', 'SRC', 'CDH2'], ['PTK2', 'PIK3CG', 'AR', 'CDH2'], ['PTK2', 'MITF', 'MET', 'CDH2'], ['PTK2', 'MITF', 'PAX6', 'CDH2'], ['PTK2', 'IL6', 'MET', 'CDH2'], ['PTK2', 'CDC42', 'CTNND1', 'CDH2'], ['PTK2', 'ASAP1', 'AR', 'CDH2'], ['PTK2', 'RAP1B', 'CTNND1', 'CDH2'], ['PTK2', 'SMAD4', 'MSX1', 'CDH2'], ['PTK2', 'SMAD4', 'PPARG', 'CDH2'], ['PTK2', 'SMAD4', 'MYC', 'CDH2'], ['PTK2', 'SMAD4', 'SMAD7', 'CDH2'], ['PTK2', 'SMAD4', 'SOX9', 'CDH2'], ['PTK2', 'SMAD4', 'MET', 'CDH2'], ['PTK2', 'SMAD4', 'MMP2', 'CDH2'], ['PTK2', 'ITGB4', 'SRC', 'CDH2'], ['PTK2', 'ACTN4', 'SRC', 'CDH2'], ['PTK2', 'PTPN13', 'SRC', 'CDH2'], ['PTK2', 'PTPN13', 'MET', 'CDH2'], ['PTK2', 'TXN', 'PTPN1', 'CDH2'], ['PTK2', 'MAPK12', 'JUN', 'CDH2'], ['PTK2', 'MAPK12', 'MYC', 'CDH2'], ['PTK2', 'NCOA1', 'SRC', 'CDH2'], ['PTK2', 'NCOA1', 'STAT3', 'CDH2'], ['PTK2', 'NCOA1', 'PAWR', 'CDH2'], ['PTK2', 'NCOA1', 'MMP2', 'CDH2'], ['PTK2', 'ROCK1', 'RAC1', 'CDH2'], ['PTK2', 'ROCK1', 'CTNNB1', 'CDH2'], ['PTK2', 'MYCN', 'CTNNB1', 'CDH2'], ['PTK2', 'CEBPA', 'CTNNB1', 'CDH2'], ['PTK2', 'PIK3CB', 'PIK3R1', 'CDH2'], ['PTK2', 'PIK3CB', 'RHOA', 'CDH2'], ['PTK2', 'CAPN2', 'CTNNB1', 'CDH2'], ['PTK2', 'EPHB2', 'CTNNB1', 'CDH2'], ['PTK2', 'PIK3R5', 'RAC1', 'CDH2'], ['PTK2', 'CASP7', 'CTNNB1', 'CDH2'], ['PTK2', 'CDK5', 'RAC1', 'CDH2'], ['PTK2', 'ECM1', 'RAC1', 'CDH2'], ['PTK2', 'ECM1', 'CTNNB1', 'CDH2'], ['PTK2', 'KDR', 'RAC1', 'CDH2'], ['PTK2', 'SOS1', 'PIK3CA', 'CDH2'], ['PTK2', 'SOS1', 'RHOA', 'CDH2'], ['PTK2', 'VEGFA', 'RAC1', 'CDH2'], ['PTK2', 'VEGFA', 'CTNNB1', 'CDH2'], ['PTK2', 'ITGA4', 'RHOA', 'CDH2'], ['PTK2', 'EGFR', 'CDC42', 'CDH2'], ['PTK2', 'SDC4', 'MMP9', 'CDH2'], ['PTK2', 'PECAM1', 'FER', 'CDH2'], ['PTK2', 'PPARD', 'CTNNB1', 'CDH2'], ['PTK2', 'PIK3CG', 'PIK3R1', 'CDH2'], ['PTK2', 'RPS6KB1', 'PIK3R1', 'CDH2'], ['PTK2', 'PIK3R3', 'RAC1', 'CDH2'], ['PTK2', 'EFNA1', 'CTNNB1', 'CDH2'], ['PTK2', 'CASP3', 'CTNNB1', 'CDH2'], ['PTK2', 'PIK3CD', 'PIK3R1', 'CDH2'], ['PTK2', 'PIK3CD', 'RAC1', 'CDH2'], ['PTK2', 'CXCL12', 'CTNNB1', 'CDH2']]\n",
      "Q05397 Q15942\n",
      "Q15942 P12931\n",
      "P12931 P19022\n",
      "Q05397 P42224\n",
      "P42224 O15105\n",
      "O15105 P19022\n",
      "Q05397 P42224\n",
      "P42224 P00519\n",
      "P00519 P19022\n",
      "Q05397 P42224\n",
      "P42224 P05412\n",
      "P05412 P19022\n",
      "Q05397 P42224\n",
      "P42224 P01106\n",
      "P01106 P19022\n",
      "Q05397 P42224\n",
      "P42224 COMPLEX:P19838_Q04206\n",
      "COMPLEX:P19838_Q04206 P19022\n",
      "Q05397 P42224\n",
      "P42224 P19544\n",
      "P19544 P19022\n",
      "Q05397 P42224\n",
      "P42224 P08581\n",
      "P08581 P19022\n",
      "Q05397 Q08043\n",
      "Q08043 P12931\n",
      "P12931 P19022\n",
      "Q05397 P48736\n",
      "P48736 P10275\n",
      "P10275 P19022\n",
      "Q05397 O75030\n",
      "O75030 P08581\n",
      "P08581 P19022\n",
      "Q05397 O75030\n",
      "O75030 P26367\n",
      "P26367 P19022\n",
      "Q05397 P05231\n",
      "P05231 P08581\n",
      "P08581 P19022\n",
      "Q05397 P60953\n",
      "P60953 O60716\n",
      "O60716 P19022\n",
      "Q05397 Q9ULH1\n",
      "Q9ULH1 P10275\n",
      "P10275 P19022\n",
      "Q05397 P61224\n",
      "P61224 O60716\n",
      "O60716 P19022\n",
      "Q05397 Q13485\n",
      "Q13485 P28360\n",
      "P28360 P19022\n",
      "Q05397 Q13485\n",
      "Q13485 P37231\n",
      "P37231 P19022\n",
      "Q05397 Q13485\n",
      "Q13485 P01106\n",
      "P01106 P19022\n",
      "Q05397 Q13485\n",
      "Q13485 O15105\n",
      "O15105 P19022\n",
      "Q05397 Q13485\n",
      "Q13485 P48436\n",
      "P48436 P19022\n",
      "Q05397 Q13485\n",
      "Q13485 P08581\n",
      "P08581 P19022\n",
      "Q05397 Q13485\n",
      "Q13485 P08253\n",
      "P08253 P19022\n",
      "Q05397 P16144\n",
      "P16144 P12931\n",
      "P12931 P19022\n",
      "Q05397 O43707\n",
      "O43707 P12931\n",
      "P12931 P19022\n",
      "Q05397 Q12923\n",
      "Q12923 P12931\n",
      "P12931 P19022\n",
      "Q05397 Q12923\n",
      "Q12923 P08581\n",
      "P08581 P19022\n",
      "Q05397 P10599\n",
      "P10599 P18031\n",
      "P18031 P19022\n",
      "Q05397 P53778\n",
      "P53778 P05412\n",
      "P05412 P19022\n",
      "Q05397 P53778\n",
      "P53778 P01106\n",
      "P01106 P19022\n",
      "Q05397 Q15788\n",
      "Q15788 P12931\n",
      "P12931 P19022\n",
      "Q05397 Q15788\n",
      "Q15788 P40763\n",
      "P40763 P19022\n",
      "Q05397 Q15788\n",
      "Q15788 Q96IZ0\n",
      "Q96IZ0 P19022\n",
      "Q05397 Q15788\n",
      "Q15788 P08253\n",
      "P08253 P19022\n",
      "Q13464 Q05397\n",
      "P63000 Q13464\n",
      "P19022 P63000\n",
      "Q13464 Q05397\n",
      "Q13464 P35222\n",
      "P19022 P35222\n",
      "P04198 Q05397\n",
      "P35222 P04198\n",
      "P19022 P35222\n",
      "P49715 Q05397\n",
      "P35222 P49715\n",
      "P19022 P35222\n",
      "Q05397 P42338\n",
      "P27986 P42338\n",
      "P19022 P27986\n",
      "Q05397 P42338\n",
      "P61586 P42338\n",
      "P19022 P61586\n",
      "P17655 Q05397\n",
      "P35222 P17655\n",
      "P19022 P35222\n",
      "P29323 Q05397\n",
      "P35222 P29323\n",
      "P19022 P35222\n",
      "Q05397 Q8WYR1\n",
      "Q8WYR1 P63000\n",
      "P19022 P63000\n",
      "P55210 Q05397\n",
      "P35222 P55210\n",
      "P19022 P35222\n",
      "Q00535 Q05397\n",
      "P63000 Q00535\n",
      "P19022 P63000\n",
      "Q16610 Q05397\n",
      "P63000 Q16610\n",
      "P19022 P63000\n",
      "Q16610 Q05397\n",
      "P35222 Q16610\n",
      "P19022 P35222\n",
      "P35968 Q05397\n",
      "P63000 P35968\n",
      "P19022 P63000\n",
      "Q07889 Q05397\n",
      "Q07889 P42336\n",
      "P19022 P42336\n",
      "Q07889 Q05397\n",
      "P61586 Q07889\n",
      "P19022 P61586\n",
      "P15692 Q05397\n",
      "P15692 P63000\n",
      "P19022 P63000\n",
      "P15692 Q05397\n",
      "P35222 P15692\n",
      "P19022 P35222\n",
      "P13612 Q05397\n",
      "P61586 P13612\n",
      "P19022 P61586\n",
      "P00533 Q05397\n",
      "P60953 P00533\n",
      "P19022 P60953\n",
      "P31431 Q05397\n",
      "P14780 P31431\n",
      "P19022 P14780\n",
      "P16284 Q05397\n",
      "P16591 P16284\n",
      "P19022 P16591\n",
      "Q03181 Q05397\n",
      "P35222 Q03181\n",
      "P19022 P35222\n",
      "Q05397 P48736\n",
      "P27986 P48736\n",
      "P19022 P27986\n",
      "P23443 Q05397\n",
      "P23443 P27986\n",
      "P19022 P27986\n",
      "Q05397 Q92569\n",
      "Q92569 P63000\n",
      "P19022 P63000\n",
      "P20827 Q05397\n",
      "P35222 P20827\n",
      "P19022 P35222\n",
      "P42574 Q05397\n",
      "P42574 P35222\n",
      "P19022 P35222\n",
      "Q05397 O00329\n",
      "P27986 O00329\n",
      "P19022 P27986\n",
      "Q05397 O00329\n",
      "O00329 P63000\n",
      "P19022 P63000\n",
      "P48061 Q05397\n",
      "P35222 P48061\n",
      "P19022 P35222\n",
      "P12931 Q05397\n",
      "P12830 P12931\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P02452 P12931\n",
      "P12931 Q9NQB0\n",
      "P12931 P19838\n",
      "P12931 P41235\n",
      "P41235 P12931\n",
      "P12931 Q9H2X6\n",
      "P12931 P42229\n",
      "P12931 P54762\n",
      "P54762 P12931\n",
      "P12931 P37231\n",
      "Q15942 P12931\n",
      "P12931 P42224\n",
      "P12931 P00519\n",
      "P05412 P12931\n",
      "COMPLEX:P19838_Q04206 P12931\n",
      "P12931 P08581\n",
      "Q08043 P12931\n",
      "P12931 P10275\n",
      "P10275 P12931\n",
      "P12931 P60953\n",
      "P12931 O60716\n",
      "P12931 Q9ULH1\n",
      "P12931 P08253\n",
      "P12931 P16144\n",
      "P16144 P12931\n",
      "O43707 P12931\n",
      "Q12923 P12931\n",
      "P18031 P12931\n",
      "Q15788 P12931\n",
      "P12931 P40763\n",
      "P12931 P63000\n",
      "P12931 P35222\n",
      "P12931 P42338\n",
      "P12931 P61586\n",
      "P17655 P12931\n",
      "P29323 P12931\n",
      "P12931 Q8WYR1\n",
      "Q00535 P12931\n",
      "P12931 P35968\n",
      "P12931 Q07889\n",
      "P12931 P42336\n",
      "P15692 P12931\n",
      "P13612 P12931\n",
      "P12931 P00533\n",
      "P12931 P14780\n",
      "P12931 P16284\n",
      "P12931 Q92569\n",
      "P12931 P20827\n",
      "P12931 O00329\n",
      "P46531 P19022\n",
      "P46531 P02452\n",
      "P46531 P19838\n",
      "P46531 P37231\n",
      "P46531 P05412\n",
      "P46531 P01106\n",
      "COMPLEX:P19838_Q04206 P46531\n",
      "P10275 P46531\n",
      "P26367 P46531\n",
      "P46531 P48436\n",
      "P40763 P46531\n",
      "P35222 P46531\n",
      "P46531 P15692\n",
      "P46531 P00533\n",
      "P46531 P42574\n",
      "Q14289 Q05397\n",
      "P54762 Q05397\n",
      "Q05397 Q15942\n",
      "Q05397 P42224\n",
      "COMPLEX:P19838_Q04206 Q05397\n",
      "P08581 Q05397\n",
      "Q05397 Q08043\n",
      "Q05397 P48736\n",
      "P48736 Q05397\n",
      "Q05397 O75030\n",
      "Q05397 P05231\n",
      "Q05397 P60953\n",
      "Q05397 Q9ULH1\n",
      "Q05397 P61224\n",
      "Q05397 Q13485\n",
      "Q05397 P16144\n",
      "P16144 Q05397\n",
      "Q05397 O43707\n",
      "Q05397 Q12923\n",
      "Q05397 P10599\n",
      "P18031 Q05397\n",
      "Q05397 P53778\n",
      "Q05397 Q15788\n",
      "Q15788 Q05397\n",
      "Q13464 Q05397\n",
      "Q05397 P63000\n",
      "P04198 Q05397\n",
      "P49715 Q05397\n",
      "Q05397 P42338\n",
      "P42338 Q05397\n",
      "Q05397 P27986\n",
      "P61586 Q05397\n",
      "P17655 Q05397\n",
      "P29323 Q05397\n",
      "Q05397 Q8WYR1\n",
      "Q8WYR1 Q05397\n",
      "P55210 Q05397\n",
      "Q00535 Q05397\n",
      "Q16610 Q05397\n",
      "P35968 Q05397\n",
      "Q07889 Q05397\n",
      "Q05397 P42336\n",
      "P15692 Q05397\n",
      "P13612 Q05397\n",
      "P00533 Q05397\n",
      "P31431 Q05397\n",
      "P16284 Q05397\n",
      "Q03181 Q05397\n",
      "P23443 Q05397\n",
      "Q05397 Q92569\n",
      "Q92569 Q05397\n",
      "P20827 Q05397\n",
      "P42574 Q05397\n",
      "Q05397 O00329\n",
      "O00329 Q05397\n",
      "P48061 Q05397\n",
      "P37231 P12830\n",
      "P12830 Q15942\n",
      "P05412 P12830\n",
      "P01106 P12830\n",
      "COMPLEX:P19838_Q04206 P12830\n",
      "P19544 P12830\n",
      "P08581 P12830\n",
      "P10275 P12830\n",
      "O75030 P12830\n",
      "P60953 P12830\n",
      "O60716 P12830\n",
      "P61224 P12830\n",
      "Q13485 P12830\n",
      "P12830 P63000\n",
      "P63000 P12830\n",
      "P12830 P35222\n",
      "P12830 P27986\n",
      "P12830 P61586\n",
      "P12830 P42336\n",
      "P12830 P00533\n",
      "P12830 P20827\n",
      "P37231 P19022\n",
      "O15105 P19022\n",
      "P00519 P19022\n",
      "P05412 P19022\n",
      "P01106 P19022\n",
      "COMPLEX:P19838_Q04206 P19022\n",
      "P19544 P19022\n",
      "P08581 P19022\n",
      "P10275 P19022\n",
      "P26367 P19022\n",
      "P19022 P60953\n",
      "O60716 P19022\n",
      "P28360 P19022\n",
      "P48436 P19022\n",
      "P08253 P19022\n",
      "P18031 P19022\n",
      "P40763 P19022\n",
      "Q96IZ0 P19022\n",
      "P19022 P63000\n",
      "P19022 P35222\n",
      "P19022 P27986\n",
      "P19022 P61586\n",
      "Q00535 P19022\n",
      "P19022 P42336\n",
      "P19022 P14780\n",
      "P19022 P16591\n",
      "Q9NQB0 P08670\n",
      "P19838 P08670\n",
      "P41235 P08670\n",
      "Q9H2X6 P08670\n",
      "P42229 P08670\n",
      "P05412 P08670\n",
      "COMPLEX:P19838_Q04206 P08670\n",
      "P40763 P08670\n",
      "Q96IZ0 P08670\n",
      "Q13464 P08670\n",
      "P35222 P08670\n",
      "P55210 P08670\n",
      "P42574 P08670\n",
      "P54762 O95819\n",
      "P37231 O95819\n",
      "P29323 O95819\n",
      "Q14289 Q15942\n",
      "P01106 Q14289\n",
      "P48736 Q14289\n",
      "Q14289 Q9ULH1\n",
      "P61224 Q14289\n",
      "Q14289 P10599\n",
      "Q14289 P53778\n",
      "Q14289 P40763\n",
      "Q14289 P63000\n",
      "P35968 Q14289\n",
      "Q14289 Q07889\n",
      "P42336 Q14289\n",
      "P15692 Q14289\n",
      "P13612 Q14289\n",
      "Q14289 P00533\n",
      "P19838 P02452\n",
      "O15105 P02452\n",
      "Q13485 P02452\n",
      "P02452 P16144\n",
      "P63000 P02452\n",
      "P02452 P27986\n",
      "P02452 P61586\n",
      "P61586 P02452\n",
      "P17655 P02452\n",
      "P02452 P55210\n",
      "P02452 Q07889\n",
      "P02452 P42336\n",
      "P02452 P13612\n",
      "P02452 P31431\n",
      "P02452 P42574\n",
      "P41235 Q9NQB0\n",
      "Q9NQB0 P05412\n",
      "P05412 Q9NQB0\n",
      "Q9NQB0 P01106\n",
      "P10275 Q9NQB0\n",
      "Q9NQB0 O75030\n",
      "P26367 Q9NQB0\n",
      "Q13485 Q9NQB0\n",
      "Q9NQB0 P40763\n",
      "Q9NQB0 P35222\n",
      "P35222 Q9NQB0\n",
      "Q9NQB0 P55210\n",
      "Q9NQB0 P15692\n",
      "Q9NQB0 Q03181\n",
      "Q9NQB0 P42574\n",
      "Q9NQB0 P48061\n",
      "P19838 P42229\n",
      "P37231 P19838\n",
      "P19838 P05412\n",
      "P19838 P01106\n",
      "COMPLEX:P19838_Q04206 P19838\n",
      "P19838 P19544\n",
      "P19838 P10275\n",
      "P19838 P05231\n",
      "P19838 P08253\n",
      "P19838 Q12923\n",
      "P10599 P19838\n",
      "P63000 P19838\n",
      "P27986 P19838\n",
      "P19838 P35968\n",
      "P42336 P19838\n",
      "P19838 P15692\n",
      "P19838 P00533\n",
      "P00533 P19838\n",
      "P19838 P14780\n",
      "P41235 P01106\n",
      "COMPLEX:P19838_Q04206 P41235\n",
      "P41235 P10275\n",
      "P41235 P63000\n",
      "P35222 P41235\n",
      "P41235 P49715\n",
      "P00519 Q9H2X6\n",
      "Q9H2X6 P26367\n",
      "P26367 Q9H2X6\n",
      "Q9H2X6 P15692\n",
      "P37231 P42229\n",
      "P42229 P00519\n",
      "P00519 P42229\n",
      "P42229 P01106\n",
      "COMPLEX:P19838_Q04206 P42229\n",
      "P42229 P10275\n",
      "P10275 P42229\n",
      "P18031 P42229\n",
      "Q15788 P42229\n",
      "P42229 P49715\n",
      "P00533 P42229\n",
      "P16591 P42229\n",
      "P42229 O00329\n",
      "P48061 P42229\n",
      "P26367 P54762\n",
      "Q12923 P54762\n",
      "P54762 P63000\n",
      "P54762 P27986\n",
      "P54762 P42336\n",
      "P00519 P37231\n",
      "P37231 P05412\n",
      "P37231 P01106\n",
      "COMPLEX:P19838_Q04206 P37231\n",
      "Q13485 P37231\n",
      "P37231 P08253\n",
      "P37231 P40763\n",
      "P37231 P35222\n",
      "P35222 P37231\n",
      "P49715 P37231\n",
      "P37231 P35968\n",
      "P37231 P00533\n",
      "P37231 P14780\n",
      "Q03181 P37231\n",
      "P19544 Q15942\n",
      "O60716 Q15942\n",
      "P35222 Q15942\n",
      "Q15942 P27986\n",
      "Q15942 P61586\n",
      "Q00535 Q15942\n",
      "Q15942 P42336\n",
      "P42224 O15105\n",
      "P42224 P00519\n",
      "P00519 P42224\n",
      "P42224 P05412\n",
      "P42224 P01106\n",
      "P42224 COMPLEX:P19838_Q04206\n",
      "P42224 P19544\n",
      "P42224 P08581\n",
      "P10275 P42224\n",
      "P42224 P05231\n",
      "P05231 P42224\n",
      "P53778 P42224\n",
      "P40763 P42224\n",
      "P29323 P42224\n",
      "P42224 P15692\n",
      "P42224 P00533\n",
      "P00533 P42224\n",
      "P42224 P14780\n",
      "P48061 P42224\n",
      "P05412 O15105\n",
      "P01106 O15105\n",
      "COMPLEX:P19838_Q04206 O15105\n",
      "O15105 P08581\n",
      "O15105 P05231\n",
      "Q13485 O15105\n",
      "O15105 P08253\n",
      "O15105 P35222\n",
      "P35222 O15105\n",
      "O15105 P15692\n",
      "O15105 P14780\n",
      "P00519 P05412\n",
      "P05412 P00519\n",
      "P01106 P00519\n",
      "COMPLEX:P19838_Q04206 P00519\n",
      "P00519 P08581\n",
      "P00519 O60716\n",
      "P18031 P00519\n",
      "P00519 P40763\n",
      "P00519 P63000\n",
      "P00519 P35222\n",
      "P00519 P29323\n",
      "P00519 Q00535\n",
      "P00519 Q07889\n",
      "P00519 P00533\n",
      "P00519 P48061\n",
      "P05412 P01106\n",
      "COMPLEX:P19838_Q04206 P05412\n",
      "P05412 P08581\n",
      "P10275 P05412\n",
      "P05412 O75030\n",
      "P05412 P05231\n",
      "P05412 Q13485\n",
      "P05412 P08253\n",
      "P05412 P10599\n",
      "P05412 P53778\n",
      "P53778 P05412\n",
      "P05412 P63000\n",
      "P05412 P35222\n",
      "P35222 P05412\n",
      "P49715 P05412\n",
      "P05412 P27986\n",
      "P05412 P29323\n",
      "P05412 P15692\n",
      "P05412 P00533\n",
      "P05412 P14780\n",
      "P05412 Q03181\n",
      "P05412 P42574\n",
      "P05412 P48061\n",
      "COMPLEX:P19838_Q04206 P01106\n",
      "P19544 P01106\n",
      "P01106 P08581\n",
      "Q13485 P01106\n",
      "P01106 P48436\n",
      "P01106 P08253\n",
      "P01106 P16144\n",
      "P01106 P10599\n",
      "P53778 P01106\n",
      "P40763 P01106\n",
      "P63000 P01106\n",
      "P35222 P01106\n",
      "P01106 P04198\n",
      "P04198 P01106\n",
      "P01106 P49715\n",
      "P49715 P01106\n",
      "P01106 P27986\n",
      "P27986 P01106\n",
      "P01106 P61586\n",
      "P01106 P29323\n",
      "P01106 Q00535\n",
      "P42336 P01106\n",
      "P01106 P15692\n",
      "P01106 P13612\n",
      "P01106 P14780\n",
      "P23443 P01106\n",
      "P01106 O00329\n",
      "P01106 P48061\n",
      "COMPLEX:P19838_Q04206 P19544\n",
      "COMPLEX:P19838_Q04206 P08581\n",
      "COMPLEX:P19838_Q04206 P10275\n",
      "COMPLEX:P19838_Q04206 P05231\n",
      "COMPLEX:P19838_Q04206 P60953\n",
      "COMPLEX:P19838_Q04206 P28360\n",
      "COMPLEX:P19838_Q04206 P48436\n",
      "COMPLEX:P19838_Q04206 P08253\n",
      "COMPLEX:P19838_Q04206 Q12923\n",
      "COMPLEX:P19838_Q04206 P18031\n",
      "COMPLEX:P19838_Q04206 Q13464\n",
      "COMPLEX:P19838_Q04206 P35222\n",
      "COMPLEX:P19838_Q04206 P49715\n",
      "COMPLEX:P19838_Q04206 P27986\n",
      "COMPLEX:P19838_Q04206 P29323\n",
      "COMPLEX:P19838_Q04206 P55210\n",
      "COMPLEX:P19838_Q04206 P35968\n",
      "COMPLEX:P19838_Q04206 P42336\n",
      "COMPLEX:P19838_Q04206 P15692\n",
      "COMPLEX:P19838_Q04206 P00533\n",
      "COMPLEX:P19838_Q04206 P31431\n",
      "COMPLEX:P19838_Q04206 P14780\n",
      "COMPLEX:P19838_Q04206 P16284\n",
      "COMPLEX:P19838_Q04206 P48061\n",
      "P19544 P10275\n",
      "Q96IZ0 P19544\n",
      "P19544 P04198\n",
      "P19544 P13612\n",
      "P19544 P00533\n",
      "P19544 P14780\n",
      "Q03181 P19544\n",
      "P08581 P48736\n",
      "P10275 P08581\n",
      "O75030 P08581\n",
      "P26367 P08581\n",
      "P05231 P08581\n",
      "P08581 P60953\n",
      "P08581 O60716\n",
      "Q13485 P08581\n",
      "Q12923 P08581\n",
      "P18031 P08581\n",
      "P08581 P40763\n",
      "P08581 P35222\n",
      "P08581 P42338\n",
      "P08581 P27986\n",
      "P08581 Q8WYR1\n",
      "P08581 P42336\n",
      "P15692 P08581\n",
      "P08581 P23443\n",
      "P08581 Q92569\n",
      "P08581 O00329\n",
      "P63000 Q08043\n",
      "Q08043 P27986\n",
      "Q08043 P61586\n",
      "P61586 Q08043\n",
      "Q08043 P42336\n",
      "P48736 P10275\n",
      "P16144 P48736\n",
      "P48736 P63000\n",
      "P27986 P48736\n",
      "P35968 P48736\n",
      "P00533 P48736\n",
      "P48061 P48736\n",
      "P26367 P10275\n",
      "P10275 P05231\n",
      "P10275 P60953\n",
      "P10275 Q9ULH1\n",
      "Q9ULH1 P10275\n",
      "Q13485 P10275\n",
      "P10275 P08253\n",
      "P10275 P10599\n",
      "P10275 P18031\n",
      "Q15788 P10275\n",
      "P10275 P35222\n",
      "P10275 P42338\n",
      "P10275 P27986\n",
      "P55210 P10275\n",
      "P10275 Q00535\n",
      "Q00535 P10275\n",
      "P10275 P15692\n",
      "P10275 P00533\n",
      "P16591 P10275\n",
      "P10275 P20827\n",
      "P42574 P10275\n",
      "O75030 P26367\n",
      "P26367 O75030\n",
      "P05231 O75030\n",
      "P48436 O75030\n",
      "P35222 O75030\n",
      "O75030 P15692\n",
      "O75030 P13612\n",
      "P26367 O60716\n",
      "P26367 P08253\n",
      "P26367 P15692\n",
      "P26367 P13612\n",
      "P26367 P14780\n",
      "Q15788 P05231\n",
      "P05231 P40763\n",
      "P35222 P05231\n",
      "P04198 P05231\n",
      "P49715 P05231\n",
      "P05231 P35968\n",
      "P05231 Q07889\n",
      "P05231 P15692\n",
      "P15692 P05231\n",
      "P05231 P14780\n",
      "Q03181 P05231\n",
      "P05231 P48061\n",
      "P60953 O60716\n",
      "P61224 P60953\n",
      "P60953 P53778\n",
      "P60953 P35222\n",
      "P35222 P60953\n",
      "P04198 P60953\n",
      "P60953 P27986\n",
      "P27986 P60953\n",
      "P29323 P60953\n",
      "P35968 P60953\n",
      "P42336 P60953\n",
      "P15692 P60953\n",
      "P60953 P00533\n",
      "P60953 P23443\n",
      "P48061 P60953\n",
      "P61224 O60716\n",
      "P18031 O60716\n",
      "O60716 P63000\n",
      "O60716 P27986\n",
      "O60716 P61586\n",
      "O60716 P42336\n",
      "P00533 O60716\n",
      "P16591 O60716\n",
      "O60716 P20827\n",
      "Q9ULH1 P63000\n",
      "Q9ULH1 P61586\n",
      "P61224 P63000\n",
      "P61224 P35222\n",
      "P61224 P27986\n",
      "P61224 P61586\n",
      "P61224 P42336\n",
      "P61224 P13612\n",
      "Q13485 P28360\n",
      "Q13485 P48436\n",
      "Q13485 P08253\n",
      "Q15788 Q13485\n",
      "Q13485 P04198\n",
      "Q00535 Q13485\n",
      "Q13485 P15692\n",
      "Q13485 P00533\n",
      "Q13485 Q03181\n",
      "Q13485 P48061\n",
      "P35222 P28360\n",
      "Q13464 P48436\n",
      "P48436 P35222\n",
      "P48436 P42336\n",
      "P48436 P15692\n",
      "Q15788 P08253\n",
      "P63000 P08253\n",
      "P35222 P08253\n",
      "P04198 P08253\n",
      "P08253 P00533\n",
      "P16144 P42338\n",
      "P16144 P27986\n",
      "P17655 P16144\n",
      "P55210 P16144\n",
      "P16144 P42336\n",
      "P42574 P16144\n",
      "P16144 O00329\n",
      "P63000 O43707\n",
      "O43707 P27986\n",
      "O43707 P61586\n",
      "P61586 O43707\n",
      "O43707 P42336\n",
      "P40763 Q12923\n",
      "Q12923 P29323\n",
      "P10599 P18031\n",
      "P18031 P40763\n",
      "P18031 P35222\n",
      "P18031 P27986\n",
      "P61586 P18031\n",
      "P17655 P18031\n",
      "P18031 P42336\n",
      "P00533 P18031\n",
      "P16591 P18031\n",
      "P53778 P49715\n",
      "Q00535 P53778\n",
      "Q15788 P40763\n",
      "Q15788 Q96IZ0\n",
      "Q15788 P15692\n",
      "Q15788 P00533\n",
      "P63000 P40763\n",
      "P40763 P35222\n",
      "P49715 P40763\n",
      "P40763 P27986\n",
      "P27986 P40763\n",
      "Q00535 P40763\n",
      "P42336 P40763\n",
      "P40763 P15692\n",
      "P00533 P40763\n",
      "P40763 P14780\n",
      "P16591 P40763\n",
      "P40763 P42574\n",
      "P40763 P48061\n",
      "P48061 P40763\n",
      "P63000 Q13464\n",
      "Q13464 P35222\n",
      "P35222 Q13464\n",
      "P61586 Q13464\n",
      "P42574 Q13464\n",
      "P48061 Q13464\n",
      "P63000 P35222\n",
      "P63000 P42338\n",
      "P27986 P63000\n",
      "P63000 P61586\n",
      "P29323 P63000\n",
      "P63000 Q8WYR1\n",
      "Q8WYR1 P63000\n",
      "P63000 Q00535\n",
      "P63000 Q16610\n",
      "P63000 P35968\n",
      "Q07889 P63000\n",
      "P63000 P42336\n",
      "P42336 P63000\n",
      "P63000 P15692\n",
      "P15692 P63000\n",
      "P13612 P63000\n",
      "P00533 P63000\n",
      "P31431 P63000\n",
      "P63000 Q92569\n",
      "Q92569 P63000\n",
      "P20827 P63000\n",
      "P63000 O00329\n",
      "O00329 P63000\n",
      "P48061 P63000\n",
      "P35222 P04198\n",
      "P35222 P49715\n",
      "P35222 P27986\n",
      "P35222 P61586\n",
      "P35222 P17655\n",
      "P35222 P29323\n",
      "P35222 P55210\n",
      "P35222 Q16610\n",
      "P35222 P42336\n",
      "P35222 P15692\n",
      "P00533 P35222\n",
      "P35222 P14780\n",
      "P16591 P35222\n",
      "P35222 Q03181\n",
      "P35222 P20827\n",
      "P35222 P42574\n",
      "P42574 P35222\n",
      "P35222 P48061\n",
      "P04198 P00533\n",
      "Q03181 P49715\n",
      "P27986 P42338\n",
      "P61586 P42338\n",
      "P35968 P42338\n",
      "P42338 Q07889\n",
      "P00533 P42338\n",
      "Q92569 P42338\n",
      "P48061 P42338\n",
      "P27986 P61586\n",
      "P61586 P27986\n",
      "P29323 P27986\n",
      "P35968 P27986\n",
      "P27986 Q07889\n",
      "P15692 P27986\n",
      "P00533 P27986\n",
      "P27986 P23443\n",
      "P23443 P27986\n",
      "P27986 O00329\n",
      "P48061 P27986\n",
      "P17655 P61586\n",
      "P61586 Q07889\n",
      "P61586 P42336\n",
      "P42336 P61586\n",
      "P61586 P13612\n",
      "P00533 P61586\n",
      "P61586 P14780\n",
      "P20827 P61586\n",
      "P42574 P61586\n",
      "P29323 P42336\n",
      "P48061 P29323\n",
      "P35968 Q8WYR1\n",
      "P00533 Q8WYR1\n",
      "P48061 Q8WYR1\n",
      "P42574 P55210\n",
      "P35968 Q07889\n",
      "P35968 P42336\n",
      "P15692 P35968\n",
      "P35968 P16284\n",
      "P35968 Q92569\n",
      "P35968 O00329\n",
      "Q07889 P42336\n",
      "P42336 Q07889\n",
      "P15692 Q07889\n",
      "P00533 Q07889\n",
      "Q92569 Q07889\n",
      "O00329 Q07889\n",
      "P15692 P42336\n",
      "P00533 P42336\n",
      "P42336 P23443\n",
      "Q92569 P42336\n",
      "P48061 P42336\n",
      "P15692 P00533\n",
      "P15692 P14780\n",
      "P00533 P14780\n",
      "P00533 Q92569\n",
      "P00533 O00329\n",
      "P14780 P31431\n",
      "Q03181 P14780\n",
      "P23443 P14780\n",
      "P48061 P14780\n",
      "P16591 P16284\n",
      "P48061 Q92569\n",
      "P48061 O00329\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  VIM\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  VIM\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  VIM\n",
      "looking for paths in the network with length:  3  for node  PTK2  and  VIM\n",
      "Found a path!\n",
      "[['PTK2', 'MAPK12', 'JUN', 'VIM'], ['PTK2', 'PIK3R1', 'STAT3', 'VIM'], ['PTK2', 'PIK3R1', 'NFKB1', 'VIM'], ['PTK2', 'IL6', 'STAT3', 'VIM'], ['PTK2', 'CDC42', 'CTNNB1', 'VIM'], ['PTK2', 'NCOA1', 'STAT5A', 'VIM'], ['PTK2', 'NCOA1', 'STAT3', 'VIM'], ['PTK2', 'NCOA1', 'PAWR', 'VIM'], ['PTK2', 'RAC1', 'ROCK1', 'VIM'], ['PTK2', 'RAC1', 'NFKB1', 'VIM'], ['PTK2', 'RAC1', 'STAT3', 'VIM'], ['PTK2', 'RAC1', 'CTNNB1', 'VIM'], ['PTK2', 'RAP1B', 'CTNNB1', 'VIM'], ['PTK2', 'SMAD4', 'TCF7L2', 'VIM'], ['PTK2', 'PIK3CA', 'STAT3', 'VIM'], ['PTK2', 'PIK3CA', 'NFKB1', 'VIM'], ['PTK2', 'STAT1', 'JUN', 'VIM'], ['PTK2', 'STAT1', 'COMPLEX:P19838_Q04206', 'VIM'], ['PTK2', 'TXN', 'NFKB1', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  PTK2  and  MAP4K4\n",
      "Found a path!\n",
      "[['PTK2', 'PTPN13', 'EPHB1', 'MAP4K4'], ['PTK2', 'PTPN13', 'EPHB2', 'MAP4K4'], ['PTK2', 'SMAD4', 'PPARG', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  PTK2B\n",
      "Found a path!\n",
      "[['PTK2', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  COL1A1\n",
      "Found a path!\n",
      "[['PTK2', 'RAC1', 'COL1A1'], ['PTK2', 'SMAD4', 'COL1A1'], ['PTK2', 'SRC', 'COL1A1'], ['PTK2', 'CASP7', 'COL1A1'], ['PTK2', 'RHOA', 'COL1A1'], ['PTK2', 'ITGA4', 'COL1A1'], ['PTK2', 'SDC4', 'COL1A1'], ['PTK2', 'ITGB4', 'COL1A1'], ['PTK2', 'CASP3', 'COL1A1'], ['PTK2', 'SOS1', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  CDH2\n",
      "Found a path!\n",
      "[['CDH1', 'SRC', 'CDH2'], ['CDH1', 'RAC1', 'CDH2'], ['CDH1', 'CDC42', 'CDH2']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  VIM\n",
      "Found a path!\n",
      "[['CDH1', 'CTNNB1', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  CDH1  and  MAP4K4\n",
      "Found a path!\n",
      "[['CDH1', 'SRC', 'EPHB1', 'MAP4K4'], ['CDH1', 'SRC', 'PPARG', 'MAP4K4'], ['CDH1', 'CTNNB1', 'EPHB2', 'MAP4K4'], ['CDH1', 'CTNNB1', 'PPARG', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  PTK2B\n",
      "Found a path!\n",
      "[['CDH1', 'SRC', 'PTK2B'], ['CDH1', 'PIK3CA', 'PTK2B'], ['CDH1', 'RAC1', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  COL1A1\n",
      "Found a path!\n",
      "[['CDH1', 'RAC1', 'COL1A1'], ['CDH1', 'RHOA', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  VIM\n",
      "Found a path!\n",
      "[['CDH2', 'CTNNB1', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  CDH2  and  MAP4K4\n",
      "Found a path!\n",
      "[['CDH2', 'CTNNB1', 'EPHB2', 'MAP4K4'], ['CDH2', 'CTNNB1', 'PPARG', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  PTK2B\n",
      "Found a path!\n",
      "[['CDH2', 'PIK3CA', 'PTK2B'], ['CDH2', 'STAT3', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  COL1A1\n",
      "Found a path!\n",
      "[['CDH2', 'RAC1', 'COL1A1'], ['CDH2', 'RHOA', 'COL1A1'], ['CDH2', 'SRC', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  VIM  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  VIM  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  VIM  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  VIM  and  MAP4K4\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  VIM  and  MAP4K4\n",
      "[['VIM', 'TGFB1', 'TNF', 'MAP4K4'], ['VIM', 'COMPLEX:P19838_Q04206', 'IKBKB', 'MAP4K4'], ['VIM', 'COMPLEX:P19838_Q04206', 'IKBKE', 'MAP4K4'], ['VIM', 'COMPLEX:P19838_Q04206', 'IKBKG', 'MAP4K4'], ['VIM', 'COMPLEX:P19838_Q04206', 'CHUK', 'MAP4K4'], ['VIM', 'TP63', 'IKBKB', 'MAP4K4'], ['VIM', 'AKT1', 'TNF', 'MAP4K4'], ['VIM', 'COMPLEX:Q04206_Q04864', 'IKBKE', 'MAP4K4'], ['VIM', 'COMPLEX:Q00653_Q01201', 'CHUK', 'MAP4K4'], ['VIM', 'MAPKAPK2', 'TNF', 'MAP4K4'], ['VIM', 'JUN', 'MAP3K3', 'MAP4K4'], ['VIM', 'CASP3', 'TNF', 'MAP4K4'], ['VIM', 'PLK1', 'MAP3K8', 'MAP4K4'], ['VIM', 'IRF6', 'TNF', 'MAP4K4'], ['VIM', 'NFKB1', 'IKBKG', 'MAP4K4'], ['VIM', 'NFKB1', 'MAP3K2', 'MAP4K4'], ['VIM', 'NFKB1', 'IKBKE', 'MAP4K4'], ['VIM', 'NFKB1', 'MAP3K3', 'MAP4K4']]\n",
      "P01137 P08670\n",
      "P01375 P01137\n",
      "P01375 O95819\n",
      "COMPLEX:P19838_Q04206 P08670\n",
      "O14920 COMPLEX:P19838_Q04206\n",
      "O95819 O14920\n",
      "COMPLEX:P19838_Q04206 P08670\n",
      "COMPLEX:P19838_Q04206 Q14164\n",
      "O95819 Q14164\n",
      "COMPLEX:P19838_Q04206 P08670\n",
      "Q9Y6K9 COMPLEX:P19838_Q04206\n",
      "O95819 Q9Y6K9\n",
      "COMPLEX:P19838_Q04206 P08670\n",
      "O15111 COMPLEX:P19838_Q04206\n",
      "O95819 O15111\n",
      "Q9H3D4 P08670\n",
      "O14920 Q9H3D4\n",
      "O95819 O14920\n",
      "P31749 P08670\n",
      "P01375 P31749\n",
      "P01375 O95819\n",
      "COMPLEX:Q04206_Q04864 P08670\n",
      "COMPLEX:Q04206_Q04864 Q14164\n",
      "O95819 Q14164\n",
      "COMPLEX:Q00653_Q01201 P08670\n",
      "O15111 COMPLEX:Q00653_Q01201\n",
      "O95819 O15111\n",
      "P49137 P08670\n",
      "P01375 P49137\n",
      "P01375 O95819\n",
      "P05412 P08670\n",
      "Q99759 P05412\n",
      "O95819 Q99759\n",
      "P42574 P08670\n",
      "P01375 P42574\n",
      "P01375 O95819\n",
      "P53350 P08670\n",
      "P41279 P53350\n",
      "O95819 P41279\n",
      "O14896 P08670\n",
      "O14896 P01375\n",
      "P01375 O95819\n",
      "P19838 P08670\n",
      "P19838 Q9Y6K9\n",
      "O95819 Q9Y6K9\n",
      "P19838 P08670\n",
      "Q9Y2U5 P19838\n",
      "O95819 Q9Y2U5\n",
      "P19838 P08670\n",
      "Q14164 P19838\n",
      "O95819 Q14164\n",
      "P19838 P08670\n",
      "Q99759 P19838\n",
      "O95819 Q99759\n",
      "P12931 Q05397\n",
      "P12830 P12931\n",
      "P12931 P19022\n",
      "P12931 Q14289\n",
      "P02452 P12931\n",
      "P12931 Q9NQB0\n",
      "P12931 P19838\n",
      "P12931 P41235\n",
      "P41235 P12931\n",
      "P12931 Q9H2X6\n",
      "P12931 P42229\n",
      "P12931 P54762\n",
      "P54762 P12931\n",
      "P12931 P37231\n",
      "Q15942 P12931\n",
      "P12931 P42224\n",
      "P12931 P00519\n",
      "P05412 P12931\n",
      "COMPLEX:P19838_Q04206 P12931\n",
      "P12931 P08581\n",
      "Q08043 P12931\n",
      "P12931 P10275\n",
      "P10275 P12931\n",
      "P12931 P60953\n",
      "P12931 O60716\n",
      "P12931 Q9ULH1\n",
      "P12931 P08253\n",
      "P12931 P16144\n",
      "P16144 P12931\n",
      "O43707 P12931\n",
      "Q12923 P12931\n",
      "P18031 P12931\n",
      "Q15788 P12931\n",
      "P12931 P40763\n",
      "P12931 P63000\n",
      "P12931 P35222\n",
      "P12931 P42338\n",
      "P12931 P61586\n",
      "P17655 P12931\n",
      "P29323 P12931\n",
      "P12931 Q8WYR1\n",
      "Q00535 P12931\n",
      "P12931 P35968\n",
      "P12931 Q07889\n",
      "P12931 P42336\n",
      "P15692 P12931\n",
      "P13612 P12931\n",
      "P12931 P00533\n",
      "P12931 P14780\n",
      "P12931 P16284\n",
      "P12931 Q92569\n",
      "P12931 P20827\n",
      "P12931 O00329\n",
      "P12931 O14920\n",
      "P12931 O15111\n",
      "P12931 P31749\n",
      "COMPLEX:Q04206_Q04864 P12931\n",
      "COMPLEX:Q00653_Q01201 P12931\n",
      "P12931 Q9Y2U5\n",
      "P46531 P19022\n",
      "P46531 P02452\n",
      "P46531 P19838\n",
      "P46531 P37231\n",
      "P46531 P05412\n",
      "P46531 P01106\n",
      "COMPLEX:P19838_Q04206 P46531\n",
      "P10275 P46531\n",
      "P26367 P46531\n",
      "P46531 P48436\n",
      "P40763 P46531\n",
      "P35222 P46531\n",
      "P46531 P15692\n",
      "P46531 P00533\n",
      "P46531 P42574\n",
      "P46531 O15111\n",
      "Q9H3D4 P46531\n",
      "COMPLEX:Q04206_Q04864 P46531\n",
      "COMPLEX:Q00653_Q01201 P46531\n",
      "Q14289 Q05397\n",
      "P54762 Q05397\n",
      "Q05397 Q15942\n",
      "Q05397 P42224\n",
      "COMPLEX:P19838_Q04206 Q05397\n",
      "P08581 Q05397\n",
      "Q05397 Q08043\n",
      "Q05397 P48736\n",
      "P48736 Q05397\n",
      "Q05397 O75030\n",
      "Q05397 P05231\n",
      "Q05397 P60953\n",
      "Q05397 Q9ULH1\n",
      "Q05397 P61224\n",
      "Q05397 Q13485\n",
      "Q05397 P16144\n",
      "P16144 Q05397\n",
      "Q05397 O43707\n",
      "Q05397 Q12923\n",
      "Q05397 P10599\n",
      "P18031 Q05397\n",
      "Q05397 P53778\n",
      "Q05397 Q15788\n",
      "Q15788 Q05397\n",
      "Q13464 Q05397\n",
      "Q05397 P63000\n",
      "P04198 Q05397\n",
      "P49715 Q05397\n",
      "Q05397 P42338\n",
      "P42338 Q05397\n",
      "Q05397 P27986\n",
      "P61586 Q05397\n",
      "P17655 Q05397\n",
      "P29323 Q05397\n",
      "Q05397 Q8WYR1\n",
      "Q8WYR1 Q05397\n",
      "P55210 Q05397\n",
      "Q00535 Q05397\n",
      "Q16610 Q05397\n",
      "P35968 Q05397\n",
      "Q07889 Q05397\n",
      "Q05397 P42336\n",
      "P15692 Q05397\n",
      "P13612 Q05397\n",
      "P00533 Q05397\n",
      "P31431 Q05397\n",
      "P16284 Q05397\n",
      "Q03181 Q05397\n",
      "P23443 Q05397\n",
      "Q05397 Q92569\n",
      "Q92569 Q05397\n",
      "P20827 Q05397\n",
      "P42574 Q05397\n",
      "Q05397 O00329\n",
      "O00329 Q05397\n",
      "P48061 Q05397\n",
      "P01375 Q05397\n",
      "COMPLEX:Q04206_Q04864 Q05397\n",
      "COMPLEX:Q00653_Q01201 Q05397\n",
      "P37231 P12830\n",
      "P12830 Q15942\n",
      "P05412 P12830\n",
      "P01106 P12830\n",
      "COMPLEX:P19838_Q04206 P12830\n",
      "P19544 P12830\n",
      "P08581 P12830\n",
      "P10275 P12830\n",
      "O75030 P12830\n",
      "P60953 P12830\n",
      "O60716 P12830\n",
      "P61224 P12830\n",
      "Q13485 P12830\n",
      "P12830 P63000\n",
      "P63000 P12830\n",
      "P12830 P35222\n",
      "P12830 P27986\n",
      "P12830 P61586\n",
      "P12830 P42336\n",
      "P12830 P00533\n",
      "P12830 P20827\n",
      "Q9H3D4 P12830\n",
      "COMPLEX:Q04206_Q04864 P12830\n",
      "COMPLEX:Q00653_Q01201 P12830\n",
      "P37231 P19022\n",
      "O15105 P19022\n",
      "P00519 P19022\n",
      "P05412 P19022\n",
      "P01106 P19022\n",
      "COMPLEX:P19838_Q04206 P19022\n",
      "P19544 P19022\n",
      "P08581 P19022\n",
      "P10275 P19022\n",
      "P26367 P19022\n",
      "P19022 P60953\n",
      "O60716 P19022\n",
      "P28360 P19022\n",
      "P48436 P19022\n",
      "P08253 P19022\n",
      "P18031 P19022\n",
      "P40763 P19022\n",
      "Q96IZ0 P19022\n",
      "P19022 P63000\n",
      "P19022 P35222\n",
      "P19022 P27986\n",
      "P19022 P61586\n",
      "Q00535 P19022\n",
      "P19022 P42336\n",
      "P19022 P14780\n",
      "P19022 P16591\n",
      "COMPLEX:Q04206_Q04864 P19022\n",
      "COMPLEX:Q00653_Q01201 P19022\n",
      "Q9NQB0 P08670\n",
      "P19838 P08670\n",
      "P41235 P08670\n",
      "Q9H2X6 P08670\n",
      "P42229 P08670\n",
      "P05412 P08670\n",
      "COMPLEX:P19838_Q04206 P08670\n",
      "P40763 P08670\n",
      "Q96IZ0 P08670\n",
      "Q13464 P08670\n",
      "P35222 P08670\n",
      "P55210 P08670\n",
      "P42574 P08670\n",
      "P01137 P08670\n",
      "Q9H3D4 P08670\n",
      "P31749 P08670\n",
      "COMPLEX:Q04206_Q04864 P08670\n",
      "COMPLEX:Q00653_Q01201 P08670\n",
      "P49137 P08670\n",
      "P53350 P08670\n",
      "O14896 P08670\n",
      "P54762 O95819\n",
      "P37231 O95819\n",
      "P29323 O95819\n",
      "O95819 P01375\n",
      "P01375 O95819\n",
      "O95819 O14920\n",
      "O95819 Q14164\n",
      "O95819 Q9Y6K9\n",
      "O95819 O15111\n",
      "O95819 Q99759\n",
      "O95819 P41279\n",
      "O95819 Q9Y2U5\n",
      "Q14289 Q15942\n",
      "P01106 Q14289\n",
      "P48736 Q14289\n",
      "Q14289 Q9ULH1\n",
      "P61224 Q14289\n",
      "Q14289 P10599\n",
      "Q14289 P53778\n",
      "Q14289 P40763\n",
      "Q14289 P63000\n",
      "P35968 Q14289\n",
      "Q14289 Q07889\n",
      "P42336 Q14289\n",
      "P15692 Q14289\n",
      "P13612 Q14289\n",
      "Q14289 P00533\n",
      "P19838 P02452\n",
      "O15105 P02452\n",
      "Q13485 P02452\n",
      "P02452 P16144\n",
      "P63000 P02452\n",
      "P02452 P27986\n",
      "P02452 P61586\n",
      "P61586 P02452\n",
      "P17655 P02452\n",
      "P02452 P55210\n",
      "P02452 Q07889\n",
      "P02452 P42336\n",
      "P02452 P13612\n",
      "P02452 P31431\n",
      "P02452 P42574\n",
      "P01137 P02452\n",
      "P41235 Q9NQB0\n",
      "Q9NQB0 P05412\n",
      "P05412 Q9NQB0\n",
      "Q9NQB0 P01106\n",
      "P10275 Q9NQB0\n",
      "Q9NQB0 O75030\n",
      "P26367 Q9NQB0\n",
      "Q13485 Q9NQB0\n",
      "Q9NQB0 P40763\n",
      "Q9NQB0 P35222\n",
      "P35222 Q9NQB0\n",
      "Q9NQB0 P55210\n",
      "Q9NQB0 P15692\n",
      "Q9NQB0 Q03181\n",
      "Q9NQB0 P42574\n",
      "Q9NQB0 P48061\n",
      "P19838 P42229\n",
      "P37231 P19838\n",
      "P19838 P05412\n",
      "P19838 P01106\n",
      "COMPLEX:P19838_Q04206 P19838\n",
      "P19838 P19544\n",
      "P19838 P10275\n",
      "P19838 P05231\n",
      "P19838 P08253\n",
      "P19838 Q12923\n",
      "P10599 P19838\n",
      "P63000 P19838\n",
      "P27986 P19838\n",
      "P19838 P35968\n",
      "P42336 P19838\n",
      "P19838 P15692\n",
      "P19838 P00533\n",
      "P00533 P19838\n",
      "P19838 P14780\n",
      "P19838 P01137\n",
      "P01375 P19838\n",
      "O14920 P19838\n",
      "Q14164 P19838\n",
      "P19838 Q9Y6K9\n",
      "Q9Y6K9 P19838\n",
      "O15111 P19838\n",
      "P19838 P31749\n",
      "P31749 P19838\n",
      "COMPLEX:Q04206_Q04864 P19838\n",
      "COMPLEX:Q00653_Q01201 P19838\n",
      "Q99759 P19838\n",
      "P19838 P41279\n",
      "Q9Y2U5 P19838\n",
      "P41235 P01106\n",
      "COMPLEX:P19838_Q04206 P41235\n",
      "P41235 P10275\n",
      "P41235 P63000\n",
      "P35222 P41235\n",
      "P41235 P49715\n",
      "P41235 P01375\n",
      "COMPLEX:Q04206_Q04864 P41235\n",
      "COMPLEX:Q00653_Q01201 P41235\n",
      "P00519 Q9H2X6\n",
      "Q9H2X6 P26367\n",
      "P26367 Q9H2X6\n",
      "Q9H2X6 P15692\n",
      "P37231 P42229\n",
      "P42229 P00519\n",
      "P00519 P42229\n",
      "P42229 P01106\n",
      "COMPLEX:P19838_Q04206 P42229\n",
      "P42229 P10275\n",
      "P10275 P42229\n",
      "P18031 P42229\n",
      "Q15788 P42229\n",
      "P42229 P49715\n",
      "P00533 P42229\n",
      "P16591 P42229\n",
      "P42229 O00329\n",
      "P48061 P42229\n",
      "P42229 P01375\n",
      "P42229 P31749\n",
      "COMPLEX:Q04206_Q04864 P42229\n",
      "COMPLEX:Q00653_Q01201 P42229\n",
      "P26367 P54762\n",
      "Q12923 P54762\n",
      "P54762 P63000\n",
      "P54762 P27986\n",
      "P54762 P42336\n",
      "P00519 P37231\n",
      "P37231 P05412\n",
      "P37231 P01106\n",
      "COMPLEX:P19838_Q04206 P37231\n",
      "Q13485 P37231\n",
      "P37231 P08253\n",
      "P37231 P40763\n",
      "P37231 P35222\n",
      "P35222 P37231\n",
      "P49715 P37231\n",
      "P37231 P35968\n",
      "P37231 P00533\n",
      "P37231 P14780\n",
      "Q03181 P37231\n",
      "P37231 P01137\n",
      "P01137 P37231\n",
      "P37231 P01375\n",
      "P01375 P37231\n",
      "COMPLEX:Q04206_Q04864 P37231\n",
      "COMPLEX:Q00653_Q01201 P37231\n",
      "P19544 Q15942\n",
      "O60716 Q15942\n",
      "P35222 Q15942\n",
      "Q15942 P27986\n",
      "Q15942 P61586\n",
      "Q00535 Q15942\n",
      "Q15942 P42336\n",
      "P31749 Q15942\n",
      "P42224 O15105\n",
      "P42224 P00519\n",
      "P00519 P42224\n",
      "P42224 P05412\n",
      "P42224 P01106\n",
      "P42224 COMPLEX:P19838_Q04206\n",
      "P42224 P19544\n",
      "P42224 P08581\n",
      "P10275 P42224\n",
      "P42224 P05231\n",
      "P05231 P42224\n",
      "P53778 P42224\n",
      "P40763 P42224\n",
      "P29323 P42224\n",
      "P42224 P15692\n",
      "P42224 P00533\n",
      "P00533 P42224\n",
      "P42224 P14780\n",
      "P48061 P42224\n",
      "Q14164 P42224\n",
      "O14896 P42224\n",
      "P05412 O15105\n",
      "P01106 O15105\n",
      "COMPLEX:P19838_Q04206 O15105\n",
      "O15105 P08581\n",
      "O15105 P05231\n",
      "Q13485 O15105\n",
      "O15105 P08253\n",
      "O15105 P35222\n",
      "P35222 O15105\n",
      "O15105 P15692\n",
      "O15105 P14780\n",
      "P01137 O15105\n",
      "COMPLEX:Q04206_Q04864 O15105\n",
      "COMPLEX:Q00653_Q01201 O15105\n",
      "P00519 P05412\n",
      "P05412 P00519\n",
      "P01106 P00519\n",
      "COMPLEX:P19838_Q04206 P00519\n",
      "P00519 P08581\n",
      "P00519 O60716\n",
      "P18031 P00519\n",
      "P00519 P40763\n",
      "P00519 P63000\n",
      "P00519 P35222\n",
      "P00519 P29323\n",
      "P00519 Q00535\n",
      "P00519 Q07889\n",
      "P00519 P00533\n",
      "P00519 P48061\n",
      "P00519 Q9H3D4\n",
      "COMPLEX:Q04206_Q04864 P00519\n",
      "COMPLEX:Q00653_Q01201 P00519\n",
      "P00519 P53350\n",
      "P05412 P01106\n",
      "COMPLEX:P19838_Q04206 P05412\n",
      "P05412 P08581\n",
      "P10275 P05412\n",
      "P05412 O75030\n",
      "P05412 P05231\n",
      "P05412 Q13485\n",
      "P05412 P08253\n",
      "P05412 P10599\n",
      "P05412 P53778\n",
      "P53778 P05412\n",
      "P05412 P63000\n",
      "P05412 P35222\n",
      "P35222 P05412\n",
      "P49715 P05412\n",
      "P05412 P27986\n",
      "P05412 P29323\n",
      "P05412 P15692\n",
      "P05412 P00533\n",
      "P05412 P14780\n",
      "P05412 Q03181\n",
      "P05412 P42574\n",
      "P05412 P48061\n",
      "P05412 P01137\n",
      "P01375 P05412\n",
      "P05412 O14920\n",
      "P05412 Q9H3D4\n",
      "P05412 P31749\n",
      "P31749 P05412\n",
      "COMPLEX:Q04206_Q04864 P05412\n",
      "COMPLEX:Q00653_Q01201 P05412\n",
      "Q99759 P05412\n",
      "P05412 P41279\n",
      "COMPLEX:P19838_Q04206 P01106\n",
      "P19544 P01106\n",
      "P01106 P08581\n",
      "Q13485 P01106\n",
      "P01106 P48436\n",
      "P01106 P08253\n",
      "P01106 P16144\n",
      "P01106 P10599\n",
      "P53778 P01106\n",
      "P40763 P01106\n",
      "P63000 P01106\n",
      "P35222 P01106\n",
      "P01106 P04198\n",
      "P04198 P01106\n",
      "P01106 P49715\n",
      "P49715 P01106\n",
      "P01106 P27986\n",
      "P27986 P01106\n",
      "P01106 P61586\n",
      "P01106 P29323\n",
      "P01106 Q00535\n",
      "P42336 P01106\n",
      "P01106 P15692\n",
      "P01106 P13612\n",
      "P01106 P14780\n",
      "P23443 P01106\n",
      "P01106 O00329\n",
      "P01106 P48061\n",
      "P01106 P01137\n",
      "P01106 P01375\n",
      "P01106 O14920\n",
      "P01106 O15111\n",
      "O15111 P01106\n",
      "P01106 P31749\n",
      "P31749 P01106\n",
      "COMPLEX:Q04206_Q04864 P01106\n",
      "COMPLEX:Q00653_Q01201 P01106\n",
      "P53350 P01106\n",
      "P01106 P41279\n",
      "COMPLEX:P19838_Q04206 P19544\n",
      "COMPLEX:P19838_Q04206 P08581\n",
      "COMPLEX:P19838_Q04206 P10275\n",
      "COMPLEX:P19838_Q04206 P05231\n",
      "COMPLEX:P19838_Q04206 P60953\n",
      "COMPLEX:P19838_Q04206 P28360\n",
      "COMPLEX:P19838_Q04206 P48436\n",
      "COMPLEX:P19838_Q04206 P08253\n",
      "COMPLEX:P19838_Q04206 Q12923\n",
      "COMPLEX:P19838_Q04206 P18031\n",
      "COMPLEX:P19838_Q04206 Q13464\n",
      "COMPLEX:P19838_Q04206 P35222\n",
      "COMPLEX:P19838_Q04206 P49715\n",
      "COMPLEX:P19838_Q04206 P27986\n",
      "COMPLEX:P19838_Q04206 P29323\n",
      "COMPLEX:P19838_Q04206 P55210\n",
      "COMPLEX:P19838_Q04206 P35968\n",
      "COMPLEX:P19838_Q04206 P42336\n",
      "COMPLEX:P19838_Q04206 P15692\n",
      "COMPLEX:P19838_Q04206 P00533\n",
      "COMPLEX:P19838_Q04206 P31431\n",
      "COMPLEX:P19838_Q04206 P14780\n",
      "COMPLEX:P19838_Q04206 P16284\n",
      "COMPLEX:P19838_Q04206 P48061\n",
      "COMPLEX:P19838_Q04206 P01137\n",
      "COMPLEX:P19838_Q04206 P01375\n",
      "O14920 COMPLEX:P19838_Q04206\n",
      "COMPLEX:P19838_Q04206 Q14164\n",
      "Q14164 COMPLEX:P19838_Q04206\n",
      "Q9Y6K9 COMPLEX:P19838_Q04206\n",
      "O15111 COMPLEX:P19838_Q04206\n",
      "COMPLEX:P19838_Q04206 Q9H3D4\n",
      "COMPLEX:P19838_Q04206 P31749\n",
      "P31749 COMPLEX:P19838_Q04206\n",
      "COMPLEX:P19838_Q04206 P53350\n",
      "COMPLEX:P19838_Q04206 P41279\n",
      "P19544 P10275\n",
      "Q96IZ0 P19544\n",
      "P19544 P04198\n",
      "P19544 P13612\n",
      "P19544 P00533\n",
      "P19544 P14780\n",
      "Q03181 P19544\n",
      "P01137 P19544\n",
      "P19544 P31749\n",
      "COMPLEX:Q04206_Q04864 P19544\n",
      "COMPLEX:Q00653_Q01201 P19544\n",
      "P08581 P48736\n",
      "P10275 P08581\n",
      "O75030 P08581\n",
      "P26367 P08581\n",
      "P05231 P08581\n",
      "P08581 P60953\n",
      "P08581 O60716\n",
      "Q13485 P08581\n",
      "Q12923 P08581\n",
      "P18031 P08581\n",
      "P08581 P40763\n",
      "P08581 P35222\n",
      "P08581 P42338\n",
      "P08581 P27986\n",
      "P08581 Q8WYR1\n",
      "P08581 P42336\n",
      "P15692 P08581\n",
      "P08581 P23443\n",
      "P08581 Q92569\n",
      "P08581 O00329\n",
      "P01137 P08581\n",
      "COMPLEX:Q04206_Q04864 P08581\n",
      "COMPLEX:Q00653_Q01201 P08581\n",
      "P63000 Q08043\n",
      "Q08043 P27986\n",
      "Q08043 P61586\n",
      "P61586 Q08043\n",
      "Q08043 P42336\n",
      "P48736 P10275\n",
      "P16144 P48736\n",
      "P48736 P63000\n",
      "P27986 P48736\n",
      "P35968 P48736\n",
      "P00533 P48736\n",
      "P48061 P48736\n",
      "P48736 P01137\n",
      "P01137 P48736\n",
      "P01375 P48736\n",
      "P48736 P31749\n",
      "P26367 P10275\n",
      "P10275 P05231\n",
      "P10275 P60953\n",
      "P10275 Q9ULH1\n",
      "Q9ULH1 P10275\n",
      "Q13485 P10275\n",
      "P10275 P08253\n",
      "P10275 P10599\n",
      "P10275 P18031\n",
      "Q15788 P10275\n",
      "P10275 P35222\n",
      "P10275 P42338\n",
      "P10275 P27986\n",
      "P55210 P10275\n",
      "P10275 Q00535\n",
      "Q00535 P10275\n",
      "P10275 P15692\n",
      "P10275 P00533\n",
      "P16591 P10275\n",
      "P10275 P20827\n",
      "P42574 P10275\n",
      "P01137 P10275\n",
      "P10275 P01375\n",
      "P10275 Q9H3D4\n",
      "P10275 P31749\n",
      "P31749 P10275\n",
      "COMPLEX:Q04206_Q04864 P10275\n",
      "COMPLEX:Q00653_Q01201 P10275\n",
      "P10275 P49137\n",
      "O75030 P26367\n",
      "P26367 O75030\n",
      "P05231 O75030\n",
      "P48436 O75030\n",
      "P35222 O75030\n",
      "O75030 P15692\n",
      "O75030 P13612\n",
      "P01137 O75030\n",
      "O75030 P31749\n",
      "P26367 O60716\n",
      "P26367 P08253\n",
      "P26367 P15692\n",
      "P26367 P13612\n",
      "P26367 P14780\n",
      "P26367 P31749\n",
      "Q15788 P05231\n",
      "P05231 P40763\n",
      "P35222 P05231\n",
      "P04198 P05231\n",
      "P49715 P05231\n",
      "P05231 P35968\n",
      "P05231 Q07889\n",
      "P05231 P15692\n",
      "P15692 P05231\n",
      "P05231 P14780\n",
      "Q03181 P05231\n",
      "P05231 P48061\n",
      "P01375 P05231\n",
      "Q9H3D4 P05231\n",
      "COMPLEX:Q04206_Q04864 P05231\n",
      "COMPLEX:Q00653_Q01201 P05231\n",
      "P60953 O60716\n",
      "P61224 P60953\n",
      "P60953 P53778\n",
      "P60953 P35222\n",
      "P35222 P60953\n",
      "P04198 P60953\n",
      "P60953 P27986\n",
      "P27986 P60953\n",
      "P29323 P60953\n",
      "P35968 P60953\n",
      "P42336 P60953\n",
      "P15692 P60953\n",
      "P60953 P00533\n",
      "P60953 P23443\n",
      "P48061 P60953\n",
      "P01137 P60953\n",
      "COMPLEX:Q04206_Q04864 P60953\n",
      "COMPLEX:Q00653_Q01201 P60953\n",
      "P61224 O60716\n",
      "P18031 O60716\n",
      "O60716 P63000\n",
      "O60716 P27986\n",
      "O60716 P61586\n",
      "O60716 P42336\n",
      "P00533 O60716\n",
      "P16591 O60716\n",
      "O60716 P20827\n",
      "Q9ULH1 P63000\n",
      "Q9ULH1 P61586\n",
      "P61224 P63000\n",
      "P61224 P35222\n",
      "P61224 P27986\n",
      "P61224 P61586\n",
      "P61224 P42336\n",
      "P61224 P13612\n",
      "P61224 Q9Y2U5\n",
      "Q13485 P28360\n",
      "Q13485 P48436\n",
      "Q13485 P08253\n",
      "Q15788 Q13485\n",
      "Q13485 P04198\n",
      "Q00535 Q13485\n",
      "Q13485 P15692\n",
      "Q13485 P00533\n",
      "Q13485 Q03181\n",
      "Q13485 P48061\n",
      "Q13485 P01137\n",
      "P01137 Q13485\n",
      "P35222 P28360\n",
      "COMPLEX:Q04206_Q04864 P28360\n",
      "COMPLEX:Q00653_Q01201 P28360\n",
      "Q13464 P48436\n",
      "P48436 P35222\n",
      "P48436 P42336\n",
      "P48436 P15692\n",
      "P31749 P48436\n",
      "COMPLEX:Q04206_Q04864 P48436\n",
      "COMPLEX:Q00653_Q01201 P48436\n",
      "Q15788 P08253\n",
      "P63000 P08253\n",
      "P35222 P08253\n",
      "P04198 P08253\n",
      "P08253 P00533\n",
      "P08253 P01137\n",
      "Q9H3D4 P08253\n",
      "COMPLEX:Q04206_Q04864 P08253\n",
      "COMPLEX:Q00653_Q01201 P08253\n",
      "P16144 P42338\n",
      "P16144 P27986\n",
      "P17655 P16144\n",
      "P55210 P16144\n",
      "P16144 P42336\n",
      "P42574 P16144\n",
      "P16144 O00329\n",
      "Q9H3D4 P16144\n",
      "P16144 P31749\n",
      "P31749 P16144\n",
      "P63000 O43707\n",
      "O43707 P27986\n",
      "O43707 P61586\n",
      "P61586 O43707\n",
      "O43707 P42336\n",
      "P40763 Q12923\n",
      "Q12923 P29323\n",
      "COMPLEX:Q04206_Q04864 Q12923\n",
      "COMPLEX:Q00653_Q01201 Q12923\n",
      "P10599 P18031\n",
      "P10599 P01375\n",
      "P01375 P10599\n",
      "P18031 P40763\n",
      "P18031 P35222\n",
      "P18031 P27986\n",
      "P61586 P18031\n",
      "P17655 P18031\n",
      "P18031 P42336\n",
      "P00533 P18031\n",
      "P16591 P18031\n",
      "P31749 P18031\n",
      "COMPLEX:Q04206_Q04864 P18031\n",
      "COMPLEX:Q00653_Q01201 P18031\n",
      "P53778 P49715\n",
      "Q00535 P53778\n",
      "P53778 P49137\n",
      "Q15788 P40763\n",
      "Q15788 Q96IZ0\n",
      "Q15788 P15692\n",
      "Q15788 P00533\n",
      "Q15788 P01375\n",
      "P31749 Q15788\n",
      "P63000 P40763\n",
      "P40763 P35222\n",
      "P49715 P40763\n",
      "P40763 P27986\n",
      "P27986 P40763\n",
      "Q00535 P40763\n",
      "P42336 P40763\n",
      "P40763 P15692\n",
      "P00533 P40763\n",
      "P40763 P14780\n",
      "P16591 P40763\n",
      "P40763 P42574\n",
      "P40763 P48061\n",
      "P48061 P40763\n",
      "P40763 Q14164\n",
      "P31749 P40763\n",
      "P40763 P53350\n",
      "P63000 Q13464\n",
      "Q13464 P35222\n",
      "P35222 Q13464\n",
      "P61586 Q13464\n",
      "P42574 Q13464\n",
      "P48061 Q13464\n",
      "COMPLEX:Q04206_Q04864 Q13464\n",
      "COMPLEX:Q00653_Q01201 Q13464\n",
      "P63000 P35222\n",
      "P63000 P42338\n",
      "P27986 P63000\n",
      "P63000 P61586\n",
      "P29323 P63000\n",
      "P63000 Q8WYR1\n",
      "Q8WYR1 P63000\n",
      "P63000 Q00535\n",
      "P63000 Q16610\n",
      "P63000 P35968\n",
      "Q07889 P63000\n",
      "P63000 P42336\n",
      "P42336 P63000\n",
      "P63000 P15692\n",
      "P15692 P63000\n",
      "P13612 P63000\n",
      "P00533 P63000\n",
      "P31431 P63000\n",
      "P63000 Q92569\n",
      "Q92569 P63000\n",
      "P20827 P63000\n",
      "P63000 O00329\n",
      "O00329 P63000\n",
      "P48061 P63000\n",
      "P63000 P31749\n",
      "P35222 P04198\n",
      "P35222 P49715\n",
      "P35222 P27986\n",
      "P35222 P61586\n",
      "P35222 P17655\n",
      "P35222 P29323\n",
      "P35222 P55210\n",
      "P35222 Q16610\n",
      "P35222 P42336\n",
      "P35222 P15692\n",
      "P00533 P35222\n",
      "P35222 P14780\n",
      "P16591 P35222\n",
      "P35222 Q03181\n",
      "P35222 P20827\n",
      "P35222 P42574\n",
      "P42574 P35222\n",
      "P35222 P48061\n",
      "P35222 Q9Y6K9\n",
      "Q9H3D4 P35222\n",
      "P35222 P31749\n",
      "P31749 P35222\n",
      "COMPLEX:Q04206_Q04864 P35222\n",
      "COMPLEX:Q00653_Q01201 P35222\n",
      "P04198 P00533\n",
      "Q03181 P49715\n",
      "P49715 P01375\n",
      "COMPLEX:Q04206_Q04864 P49715\n",
      "COMPLEX:Q00653_Q01201 P49715\n",
      "P27986 P42338\n",
      "P61586 P42338\n",
      "P35968 P42338\n",
      "P42338 Q07889\n",
      "P00533 P42338\n",
      "Q92569 P42338\n",
      "P48061 P42338\n",
      "P42338 P31749\n",
      "P27986 P61586\n",
      "P61586 P27986\n",
      "P29323 P27986\n",
      "P35968 P27986\n",
      "P27986 Q07889\n",
      "P15692 P27986\n",
      "P00533 P27986\n",
      "P27986 P23443\n",
      "P23443 P27986\n",
      "P27986 O00329\n",
      "P48061 P27986\n",
      "P01137 P27986\n",
      "P27986 P31749\n",
      "COMPLEX:Q04206_Q04864 P27986\n",
      "COMPLEX:Q00653_Q01201 P27986\n",
      "P17655 P61586\n",
      "P61586 Q07889\n",
      "P61586 P42336\n",
      "P42336 P61586\n",
      "P61586 P13612\n",
      "P00533 P61586\n",
      "P61586 P14780\n",
      "P20827 P61586\n",
      "P42574 P61586\n",
      "P01375 P61586\n",
      "P61586 P31749\n",
      "P29323 P42336\n",
      "P48061 P29323\n",
      "P29323 P01137\n",
      "P01137 P29323\n",
      "COMPLEX:Q04206_Q04864 P29323\n",
      "COMPLEX:Q00653_Q01201 P29323\n",
      "P35968 Q8WYR1\n",
      "P00533 Q8WYR1\n",
      "P48061 Q8WYR1\n",
      "Q8WYR1 P31749\n",
      "P42574 P55210\n",
      "COMPLEX:Q04206_Q04864 P55210\n",
      "COMPLEX:Q00653_Q01201 P55210\n",
      "P01137 Q16610\n",
      "P35968 Q07889\n",
      "P35968 P42336\n",
      "P15692 P35968\n",
      "P35968 P16284\n",
      "P35968 Q92569\n",
      "P35968 O00329\n",
      "P35968 P31749\n",
      "COMPLEX:Q04206_Q04864 P35968\n",
      "COMPLEX:Q00653_Q01201 P35968\n",
      "Q07889 P42336\n",
      "P42336 Q07889\n",
      "P15692 Q07889\n",
      "P00533 Q07889\n",
      "Q92569 Q07889\n",
      "O00329 Q07889\n",
      "Q07889 P31749\n",
      "P15692 P42336\n",
      "P00533 P42336\n",
      "P42336 P23443\n",
      "Q92569 P42336\n",
      "P48061 P42336\n",
      "P01137 P42336\n",
      "P42336 P31749\n",
      "COMPLEX:Q04206_Q04864 P42336\n",
      "COMPLEX:Q00653_Q01201 P42336\n",
      "P15692 P00533\n",
      "P15692 P14780\n",
      "P01137 P15692\n",
      "Q9H3D4 P15692\n",
      "COMPLEX:Q04206_Q04864 P15692\n",
      "COMPLEX:Q00653_Q01201 P15692\n",
      "P49137 P15692\n",
      "P00533 P14780\n",
      "P00533 Q92569\n",
      "P00533 O00329\n",
      "P01137 P00533\n",
      "COMPLEX:Q04206_Q04864 P00533\n",
      "COMPLEX:Q00653_Q01201 P00533\n",
      "P14780 P31431\n",
      "COMPLEX:Q04206_Q04864 P31431\n",
      "COMPLEX:Q00653_Q01201 P31431\n",
      "Q03181 P14780\n",
      "P23443 P14780\n",
      "P48061 P14780\n",
      "P14780 P01137\n",
      "P01375 P14780\n",
      "COMPLEX:Q04206_Q04864 P14780\n",
      "COMPLEX:Q00653_Q01201 P14780\n",
      "P16591 P16284\n",
      "COMPLEX:Q04206_Q04864 P16284\n",
      "COMPLEX:Q00653_Q01201 P16284\n",
      "Q03181 P01137\n",
      "P23443 P01137\n",
      "P01137 P23443\n",
      "P01375 P23443\n",
      "P23443 Q9H3D4\n",
      "P31749 P23443\n",
      "P48061 Q92569\n",
      "Q92569 P31749\n",
      "P01375 P42574\n",
      "P42574 O14920\n",
      "P42574 Q9H3D4\n",
      "P42574 P31749\n",
      "P48061 O00329\n",
      "O00329 P31749\n",
      "P01137 P48061\n",
      "COMPLEX:Q04206_Q04864 P48061\n",
      "COMPLEX:Q00653_Q01201 P48061\n",
      "P01375 P01137\n",
      "P01137 P31749\n",
      "P31749 P01137\n",
      "COMPLEX:Q04206_Q04864 P01137\n",
      "COMPLEX:Q00653_Q01201 P01137\n",
      "O14896 P01137\n",
      "P01375 O14920\n",
      "P01375 Q9Y6K9\n",
      "P01375 O15111\n",
      "Q9H3D4 P01375\n",
      "P01375 P31749\n",
      "COMPLEX:Q04206_Q04864 P01375\n",
      "COMPLEX:Q00653_Q01201 P01375\n",
      "P01375 P49137\n",
      "P53350 P01375\n",
      "P01375 O14896\n",
      "O14896 P01375\n",
      "Q9Y6K9 O14920\n",
      "O15111 O14920\n",
      "O14920 Q9H3D4\n",
      "P31749 O14920\n",
      "Q99759 O14920\n",
      "P53350 O14920\n",
      "Q9Y2U5 O14920\n",
      "Q14164 COMPLEX:Q04206_Q04864\n",
      "COMPLEX:Q04206_Q04864 Q14164\n",
      "COMPLEX:Q00653_Q01201 Q14164\n",
      "Q9Y6K9 O15111\n",
      "P31749 Q9Y6K9\n",
      "Q99759 Q9Y6K9\n",
      "P41279 Q9Y6K9\n",
      "Q9Y2U5 Q9Y6K9\n",
      "Q9H3D4 O15111\n",
      "P31749 O15111\n",
      "O15111 COMPLEX:Q00653_Q01201\n",
      "Q99759 O15111\n",
      "P41279 O15111\n",
      "Q9Y2U5 O15111\n",
      "Q9H3D4 P31749\n",
      "COMPLEX:Q04206_Q04864 Q9H3D4\n",
      "COMPLEX:Q00653_Q01201 Q9H3D4\n",
      "P53350 Q9H3D4\n",
      "COMPLEX:Q04206_Q04864 P31749\n",
      "COMPLEX:Q00653_Q01201 P31749\n",
      "P31749 P41279\n",
      "COMPLEX:Q04206_Q04864 P53350\n",
      "COMPLEX:Q04206_Q04864 P41279\n",
      "COMPLEX:Q00653_Q01201 P53350\n",
      "COMPLEX:Q00653_Q01201 P41279\n",
      "P49137 P53350\n",
      "P41279 P53350\n",
      "looking for paths in the network with length:  0  for node  VIM  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  VIM  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  VIM  and  PTK2B\n",
      "Found a path!\n",
      "[['VIM', 'STAT3', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  VIM  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  VIM  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  VIM  and  COL1A1\n",
      "Found a path!\n",
      "[['VIM', 'CASP3', 'COL1A1'], ['VIM', 'CASP7', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  MAP4K4  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  MAP4K4  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  MAP4K4  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  MAP4K4  and  PTK2B\n",
      "Found a path!\n",
      "[['MAP4K4', 'CHUK', 'MYC', 'PTK2B'], ['MAP4K4', 'TNF', 'PIK3CG', 'PTK2B'], ['MAP4K4', 'TNF', 'TXN', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  MAP4K4  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  MAP4K4  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  MAP4K4  and  COL1A1\n",
      "looking for paths in the network with length:  3  for node  MAP4K4  and  COL1A1\n",
      "Found a path!\n",
      "[['MAP4K4', 'IKBKB', 'NFKB1', 'COL1A1'], ['MAP4K4', 'IKBKG', 'NFKB1', 'COL1A1'], ['MAP4K4', 'MAP3K3', 'NFKB1', 'COL1A1'], ['MAP4K4', 'MAP3K2', 'NFKB1', 'COL1A1'], ['MAP4K4', 'CHUK', 'NFKB1', 'COL1A1'], ['MAP4K4', 'TNF', 'TGFB1', 'COL1A1'], ['MAP4K4', 'TNF', 'NFKB1', 'COL1A1'], ['MAP4K4', 'TNF', 'RHOA', 'COL1A1'], ['MAP4K4', 'IKBKE', 'NFKB1', 'COL1A1'], ['MAP4K4', 'EPHB1', 'SRC', 'COL1A1'], ['MAP4K4', 'PPARG', 'SRC', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  PTK2B  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  PTK2B  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  PTK2B  and  COL1A1\n",
      "Found a path!\n",
      "[['PTK2B', 'RAC1', 'COL1A1'], ['PTK2B', 'SRC', 'COL1A1'], ['PTK2B', 'PIK3CA', 'COL1A1'], ['PTK2B', 'ITGA4', 'COL1A1']]\n",
      "CPU times: user 15min 18s, sys: 436 ms, total: 15min 18s\n",
      "Wall time: 15min 18s\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "P54762 Q05397\n",
      "COMPLEX:P05412_P53539 P12830\n",
      "COMPLEX:P19838_Q04206 P12830\n",
      "COMPLEX:P17535_P53539 P12830\n",
      "COMPLEX:Q01201 P12830\n",
      "COMPLEX:P15408_P17275 P12830\n",
      "COMPLEX:P15407_P17535 P12830\n",
      "COMPLEX:P01100_P17275 P12830\n",
      "COMPLEX:P19838_Q04864 P12830\n",
      "COMPLEX:Q04206 P12830\n",
      "COMPLEX:P19838_Q01201 P12830\n",
      "COMPLEX:P15407_P17275 P12830\n",
      "COMPLEX:P05412_P17275 P12830\n",
      "COMPLEX:P17535 P12830\n",
      "COMPLEX:Q00653_Q01201 P12830\n",
      "COMPLEX:P17275_P53539 P12830\n",
      "COMPLEX:P19838_Q00653 P12830\n",
      "COMPLEX:P15408_P17535 P12830\n",
      "COMPLEX:Q00653_Q04206 P12830\n",
      "COMPLEX:P19838 P12830\n",
      "COMPLEX:Q04864 P12830\n",
      "COMPLEX:P05412_P17535 P12830\n",
      "COMPLEX:P01100_P05412 P12830\n",
      "COMPLEX:P17275 P12830\n",
      "COMPLEX:P05412_P15407 P12830\n",
      "COMPLEX:P05412 P12830\n",
      "COMPLEX:P01100_P17535 P12830\n",
      "COMPLEX:Q04206_Q04864 P12830\n",
      "COMPLEX:Q01201_Q04864 P12830\n",
      "COMPLEX:Q00653 P12830\n",
      "COMPLEX:Q00653_Q04864 P12830\n",
      "COMPLEX:Q01201_Q04206 P12830\n",
      "COMPLEX:P05412_P15408 P12830\n",
      "COMPLEX:P17275_P17535 P12830\n",
      "P37231 P12830\n",
      "COMPLEX:P05412_P53539 P19022\n",
      "COMPLEX:P19838_Q04206 P19022\n",
      "COMPLEX:P17535_P53539 P19022\n",
      "COMPLEX:Q01201 P19022\n",
      "COMPLEX:P15408_P17275 P19022\n",
      "COMPLEX:P15407_P17535 P19022\n",
      "COMPLEX:P01100_P17275 P19022\n",
      "COMPLEX:P19838_Q04864 P19022\n",
      "COMPLEX:Q04206 P19022\n",
      "COMPLEX:P19838_Q01201 P19022\n",
      "COMPLEX:P15407_P17275 P19022\n",
      "COMPLEX:P05412_P17275 P19022\n",
      "COMPLEX:P17535 P19022\n",
      "COMPLEX:Q00653_Q01201 P19022\n",
      "COMPLEX:P17275_P53539 P19022\n",
      "COMPLEX:P19838_Q00653 P19022\n",
      "COMPLEX:P15408_P17535 P19022\n",
      "COMPLEX:Q00653_Q04206 P19022\n",
      "COMPLEX:P19838 P19022\n",
      "COMPLEX:Q04864 P19022\n",
      "COMPLEX:P05412_P17535 P19022\n",
      "COMPLEX:P01100_P05412 P19022\n",
      "COMPLEX:P17275 P19022\n",
      "COMPLEX:P05412_P15407 P19022\n",
      "COMPLEX:P05412 P19022\n",
      "COMPLEX:P01100_P17535 P19022\n",
      "COMPLEX:Q04206_Q04864 P19022\n",
      "COMPLEX:Q01201_Q04864 P19022\n",
      "COMPLEX:Q00653 P19022\n",
      "COMPLEX:Q00653_Q04864 P19022\n",
      "COMPLEX:Q01201_Q04206 P19022\n",
      "COMPLEX:P05412_P15408 P19022\n",
      "COMPLEX:P17275_P17535 P19022\n",
      "P37231 P19022\n",
      "COMPLEX:P05412_P53539 P08670\n",
      "COMPLEX:P19838_Q04206 P08670\n",
      "COMPLEX:P17535_P53539 P08670\n",
      "Q8WYK2 P08670\n",
      "P19838 P08670\n",
      "Q9NQB0 P08670\n",
      "COMPLEX:Q01201 P08670\n",
      "COMPLEX:P15408_P17275 P08670\n",
      "COMPLEX:P15407_P17535 P08670\n",
      "P08047 P08670\n",
      "COMPLEX:P01100_P17275 P08670\n",
      "COMPLEX:P19838_Q04864 P08670\n",
      "COMPLEX:Q04206 P08670\n",
      "COMPLEX:P19838_Q01201 P08670\n",
      "COMPLEX:P15407_P17275 P08670\n",
      "COMPLEX:P05412_P17275 P08670\n",
      "COMPLEX:P17535 P08670\n",
      "Q02447 P08670\n",
      "P42229 P08670\n",
      "COMPLEX:Q00653_Q01201 P08670\n",
      "COMPLEX:P17275_P53539 P08670\n",
      "COMPLEX:P19838_Q00653 P08670\n",
      "COMPLEX:P15408_P17535 P08670\n",
      "COMPLEX:Q00653_Q04206 P08670\n",
      "COMPLEX:P19838 P08670\n",
      "COMPLEX:Q04864 P08670\n",
      "COMPLEX:P05412_P17535 P08670\n",
      "P41235 P08670\n",
      "COMPLEX:P01100_P05412 P08670\n",
      "COMPLEX:P17275 P08670\n",
      "COMPLEX:P05412_P15407 P08670\n",
      "COMPLEX:P05412 P08670\n",
      "COMPLEX:P01100_P17535 P08670\n",
      "COMPLEX:Q04206_Q04864 P08670\n",
      "Q9H2X6 P08670\n",
      "COMPLEX:Q01201_Q04864 P08670\n",
      "COMPLEX:Q00653 P08670\n",
      "COMPLEX:Q00653_Q04864 P08670\n",
      "COMPLEX:Q01201_Q04206 P08670\n",
      "COMPLEX:P05412_P15408 P08670\n",
      "COMPLEX:P17275_P17535 P08670\n",
      "O95819 Q9Y2U5\n",
      "P54762 O95819\n",
      "P37231 O95819\n",
      "COMPLEX:P05412_P53539 Q14289\n",
      "COMPLEX:P17535_P53539 Q14289\n",
      "COMPLEX:P15408_P17275 Q14289\n",
      "COMPLEX:P15407_P17535 Q14289\n",
      "COMPLEX:P01100_P17275 Q14289\n",
      "COMPLEX:P15407_P17275 Q14289\n",
      "COMPLEX:P05412_P17275 Q14289\n",
      "COMPLEX:P17535 Q14289\n",
      "COMPLEX:P17275_P53539 Q14289\n",
      "COMPLEX:P15408_P17535 Q14289\n",
      "COMPLEX:P05412_P17535 Q14289\n",
      "COMPLEX:P01100_P05412 Q14289\n",
      "COMPLEX:P17275 Q14289\n",
      "COMPLEX:P05412_P15407 Q14289\n",
      "COMPLEX:P05412 Q14289\n",
      "COMPLEX:P01100_P17535 Q14289\n",
      "COMPLEX:P05412_P15408 Q14289\n",
      "COMPLEX:P17275_P17535 Q14289\n",
      "P19838 P02452\n",
      "P08047 P02452\n",
      "Q02447 P02452\n",
      "COMPLEX:P05412_P53539 P19838\n",
      "COMPLEX:P05412_P53539 P08047\n",
      "COMPLEX:P05412_P53539 Q02447\n",
      "COMPLEX:P05412_P53539 P37231\n",
      "COMPLEX:P19838_Q04206 P19838\n",
      "COMPLEX:P19838_Q04206 P08047\n",
      "COMPLEX:P19838_Q04206 Q02447\n",
      "COMPLEX:P19838_Q04206 P42229\n",
      "COMPLEX:P19838_Q04206 P41235\n",
      "COMPLEX:P19838_Q04206 P37231\n",
      "COMPLEX:P17535_P53539 P19838\n",
      "COMPLEX:P17535_P53539 P08047\n",
      "COMPLEX:P17535_P53539 Q02447\n",
      "COMPLEX:P17535_P53539 P37231\n",
      "COMPLEX:Q01201 P19838\n",
      "COMPLEX:P15408_P17275 P19838\n",
      "COMPLEX:P15407_P17535 P19838\n",
      "P08047 P19838\n",
      "COMPLEX:P01100_P17275 P19838\n",
      "COMPLEX:P19838_Q04864 P19838\n",
      "COMPLEX:Q04206 P19838\n",
      "COMPLEX:P19838_Q01201 P19838\n",
      "COMPLEX:P15407_P17275 P19838\n",
      "COMPLEX:P05412_P17275 P19838\n",
      "COMPLEX:P17535 P19838\n",
      "P19838 P42229\n",
      "COMPLEX:Q00653_Q01201 P19838\n",
      "COMPLEX:P17275_P53539 P19838\n",
      "COMPLEX:P19838_Q00653 P19838\n",
      "COMPLEX:P15408_P17535 P19838\n",
      "COMPLEX:Q00653_Q04206 P19838\n",
      "COMPLEX:P19838 P19838\n",
      "COMPLEX:Q04864 P19838\n",
      "COMPLEX:P05412_P17535 P19838\n",
      "COMPLEX:P01100_P05412 P19838\n",
      "COMPLEX:P17275 P19838\n",
      "COMPLEX:P05412_P15407 P19838\n",
      "COMPLEX:P05412 P19838\n",
      "COMPLEX:P01100_P17535 P19838\n",
      "COMPLEX:Q04206_Q04864 P19838\n",
      "COMPLEX:Q01201_Q04864 P19838\n",
      "COMPLEX:Q00653 P19838\n",
      "COMPLEX:Q00653_Q04864 P19838\n",
      "COMPLEX:Q01201_Q04206 P19838\n",
      "COMPLEX:P05412_P15408 P19838\n",
      "COMPLEX:P17275_P17535 P19838\n",
      "Q9Y2U5 P19838\n",
      "P37231 P19838\n",
      "P41235 Q9NQB0\n",
      "COMPLEX:Q01201 P08047\n",
      "COMPLEX:Q01201 Q02447\n",
      "COMPLEX:Q01201 P42229\n",
      "COMPLEX:Q01201 P41235\n",
      "COMPLEX:Q01201 P37231\n",
      "COMPLEX:P15408_P17275 P08047\n",
      "COMPLEX:P15408_P17275 Q02447\n",
      "COMPLEX:P15408_P17275 P37231\n",
      "COMPLEX:P15407_P17535 P08047\n",
      "COMPLEX:P15407_P17535 Q02447\n",
      "COMPLEX:P15407_P17535 P37231\n",
      "COMPLEX:P01100_P17275 P08047\n",
      "COMPLEX:P19838_Q04864 P08047\n",
      "COMPLEX:Q04206 P08047\n",
      "COMPLEX:P19838_Q01201 P08047\n",
      "COMPLEX:P15407_P17275 P08047\n",
      "COMPLEX:P05412_P17275 P08047\n",
      "COMPLEX:P17535 P08047\n",
      "Q02447 P08047\n",
      "COMPLEX:Q00653_Q01201 P08047\n",
      "COMPLEX:P17275_P53539 P08047\n",
      "COMPLEX:P19838_Q00653 P08047\n",
      "COMPLEX:P15408_P17535 P08047\n",
      "COMPLEX:Q00653_Q04206 P08047\n",
      "COMPLEX:P19838 P08047\n",
      "COMPLEX:Q04864 P08047\n",
      "COMPLEX:P05412_P17535 P08047\n",
      "P08047 P41235\n",
      "COMPLEX:P01100_P05412 P08047\n",
      "COMPLEX:P17275 P08047\n",
      "COMPLEX:P05412_P15407 P08047\n",
      "COMPLEX:P05412 P08047\n",
      "COMPLEX:P01100_P17535 P08047\n",
      "COMPLEX:Q04206_Q04864 P08047\n",
      "COMPLEX:Q01201_Q04864 P08047\n",
      "COMPLEX:Q00653 P08047\n",
      "COMPLEX:Q00653_Q04864 P08047\n",
      "COMPLEX:Q01201_Q04206 P08047\n",
      "COMPLEX:P05412_P15408 P08047\n",
      "COMPLEX:P17275_P17535 P08047\n",
      "P08047 P54762\n",
      "P37231 P08047\n",
      "COMPLEX:P01100_P17275 Q02447\n",
      "COMPLEX:P01100_P17275 P37231\n",
      "COMPLEX:P19838_Q04864 Q02447\n",
      "COMPLEX:P19838_Q04864 P42229\n",
      "COMPLEX:P19838_Q04864 P41235\n",
      "COMPLEX:P19838_Q04864 P37231\n",
      "COMPLEX:Q04206 Q02447\n",
      "COMPLEX:Q04206 P42229\n",
      "COMPLEX:Q04206 P41235\n",
      "COMPLEX:Q04206 P37231\n",
      "COMPLEX:P19838_Q01201 Q02447\n",
      "COMPLEX:P19838_Q01201 P42229\n",
      "COMPLEX:P19838_Q01201 P41235\n",
      "COMPLEX:P19838_Q01201 P37231\n",
      "COMPLEX:P15407_P17275 Q02447\n",
      "COMPLEX:P15407_P17275 P37231\n",
      "COMPLEX:P05412_P17275 Q02447\n",
      "COMPLEX:P05412_P17275 P37231\n",
      "COMPLEX:P17535 Q02447\n",
      "COMPLEX:P17535 P37231\n",
      "COMPLEX:Q00653_Q01201 Q02447\n",
      "COMPLEX:P17275_P53539 Q02447\n",
      "COMPLEX:P19838_Q00653 Q02447\n",
      "COMPLEX:P15408_P17535 Q02447\n",
      "COMPLEX:Q00653_Q04206 Q02447\n",
      "COMPLEX:P19838 Q02447\n",
      "COMPLEX:Q04864 Q02447\n",
      "COMPLEX:P05412_P17535 Q02447\n",
      "COMPLEX:P01100_P05412 Q02447\n",
      "COMPLEX:P17275 Q02447\n",
      "COMPLEX:P05412_P15407 Q02447\n",
      "COMPLEX:P05412 Q02447\n",
      "COMPLEX:P01100_P17535 Q02447\n",
      "COMPLEX:Q04206_Q04864 Q02447\n",
      "COMPLEX:Q01201_Q04864 Q02447\n",
      "COMPLEX:Q00653 Q02447\n",
      "COMPLEX:Q00653_Q04864 Q02447\n",
      "COMPLEX:Q01201_Q04206 Q02447\n",
      "COMPLEX:P05412_P15408 Q02447\n",
      "COMPLEX:P17275_P17535 Q02447\n",
      "COMPLEX:Q00653_Q01201 P42229\n",
      "COMPLEX:P19838_Q00653 P42229\n",
      "COMPLEX:Q00653_Q04206 P42229\n",
      "COMPLEX:P19838 P42229\n",
      "COMPLEX:Q04864 P42229\n",
      "COMPLEX:Q04206_Q04864 P42229\n",
      "COMPLEX:Q01201_Q04864 P42229\n",
      "COMPLEX:Q00653 P42229\n",
      "COMPLEX:Q00653_Q04864 P42229\n",
      "COMPLEX:Q01201_Q04206 P42229\n",
      "P37231 P42229\n",
      "COMPLEX:Q00653_Q01201 P41235\n",
      "COMPLEX:Q00653_Q01201 P37231\n",
      "COMPLEX:P17275_P53539 P37231\n",
      "COMPLEX:P19838_Q00653 P41235\n",
      "COMPLEX:P19838_Q00653 P37231\n",
      "COMPLEX:P15408_P17535 P37231\n",
      "COMPLEX:Q00653_Q04206 P41235\n",
      "COMPLEX:Q00653_Q04206 P37231\n",
      "COMPLEX:P19838 P41235\n",
      "COMPLEX:P19838 P37231\n",
      "COMPLEX:Q04864 P41235\n",
      "COMPLEX:Q04864 P37231\n",
      "COMPLEX:P05412_P17535 P37231\n",
      "COMPLEX:Q04206_Q04864 P41235\n",
      "COMPLEX:Q01201_Q04864 P41235\n",
      "COMPLEX:Q00653 P41235\n",
      "COMPLEX:Q00653_Q04864 P41235\n",
      "COMPLEX:Q01201_Q04206 P41235\n",
      "COMPLEX:P01100_P05412 P37231\n",
      "COMPLEX:P17275 P37231\n",
      "COMPLEX:P05412_P15407 P37231\n",
      "COMPLEX:P05412 P37231\n",
      "COMPLEX:P01100_P17535 P37231\n",
      "COMPLEX:Q04206_Q04864 P37231\n",
      "COMPLEX:Q01201_Q04864 P37231\n",
      "COMPLEX:Q00653 P37231\n",
      "COMPLEX:Q00653_Q04864 P37231\n",
      "COMPLEX:Q01201_Q04206 P37231\n",
      "COMPLEX:P05412_P15408 P37231\n",
      "COMPLEX:P17275_P17535 P37231\n",
      "looking for paths in the network with length:  0  for node  SRC  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  SRC  and  PTK2B\n",
      "Found a path!\n",
      "[['SRC', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  SRC  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  SRC  and  COL1A1\n",
      "Found a path!\n",
      "[['SRC', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  PTK2\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  PTK2\n",
      "Found a path!\n",
      "[['NOTCH1', 'RELB', 'PTK2'], ['NOTCH1', 'COMPLEX:P19838_Q04864', 'PTK2'], ['NOTCH1', 'COMPLEX:Q00653_Q01201', 'PTK2'], ['NOTCH1', 'RELA', 'PTK2'], ['NOTCH1', 'NFKB1', 'PTK2'], ['NOTCH1', 'COMPLEX:Q00653_Q04206', 'PTK2'], ['NOTCH1', 'COMPLEX:P19838_Q04206', 'PTK2'], ['NOTCH1', 'COMPLEX:P19838_Q01201', 'PTK2'], ['NOTCH1', 'COMPLEX:Q04206_Q04864', 'PTK2'], ['NOTCH1', 'COMPLEX:P19838_Q00653', 'PTK2'], ['NOTCH1', 'REL', 'PTK2'], ['NOTCH1', 'COMPLEX:Q01201_Q04206', 'PTK2'], ['NOTCH1', 'COMPLEX:Q01201_Q04864', 'PTK2'], ['NOTCH1', 'NFKB2', 'PTK2'], ['NOTCH1', 'COMPLEX:Q00653_Q04864', 'PTK2']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  CDH1\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  CDH1\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  CDH1\n",
      "Found a path!\n",
      "[['NOTCH1', 'RELB', 'CDH1'], ['NOTCH1', 'COMPLEX:P19838_Q04864', 'CDH1'], ['NOTCH1', 'COMPLEX:Q00653_Q01201', 'CDH1'], ['NOTCH1', 'RELA', 'CDH1'], ['NOTCH1', 'PPARG', 'CDH1'], ['NOTCH1', 'NFKB1', 'CDH1'], ['NOTCH1', 'COMPLEX:Q00653_Q04206', 'CDH1'], ['NOTCH1', 'COMPLEX:P19838_Q04206', 'CDH1'], ['NOTCH1', 'COMPLEX:P19838_Q01201', 'CDH1'], ['NOTCH1', 'COMPLEX:Q04206_Q04864', 'CDH1'], ['NOTCH1', 'COMPLEX:P19838_Q00653', 'CDH1'], ['NOTCH1', 'REL', 'CDH1'], ['NOTCH1', 'COMPLEX:Q01201_Q04206', 'CDH1'], ['NOTCH1', 'COMPLEX:Q01201_Q04864', 'CDH1'], ['NOTCH1', 'NFKB2', 'CDH1'], ['NOTCH1', 'COMPLEX:Q00653_Q04864', 'CDH1']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  CDH2\n",
      "Found a path!\n",
      "[['NOTCH1', 'CDH2']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  VIM\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  VIM\n",
      "Found a path!\n",
      "[['NOTCH1', 'RELB', 'VIM'], ['NOTCH1', 'SP3', 'VIM'], ['NOTCH1', 'COMPLEX:P19838_Q04864', 'VIM'], ['NOTCH1', 'COMPLEX:Q00653_Q01201', 'VIM'], ['NOTCH1', 'RELA', 'VIM'], ['NOTCH1', 'NFKB1', 'VIM'], ['NOTCH1', 'SP1', 'VIM'], ['NOTCH1', 'COMPLEX:Q00653_Q04206', 'VIM'], ['NOTCH1', 'COMPLEX:P19838_Q04206', 'VIM'], ['NOTCH1', 'COMPLEX:P19838_Q01201', 'VIM'], ['NOTCH1', 'COMPLEX:Q04206_Q04864', 'VIM'], ['NOTCH1', 'COMPLEX:P19838_Q00653', 'VIM'], ['NOTCH1', 'REL', 'VIM'], ['NOTCH1', 'NFKB1', 'VIM'], ['NOTCH1', 'COMPLEX:Q01201_Q04206', 'VIM'], ['NOTCH1', 'COMPLEX:Q01201_Q04864', 'VIM'], ['NOTCH1', 'NFKB2', 'VIM'], ['NOTCH1', 'COMPLEX:Q00653_Q04864', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  MAP4K4\n",
      "Found a path!\n",
      "[['NOTCH1', 'PPARG', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  NOTCH1  and  PTK2B\n",
      "looking for paths in the network with length:  3  for node  NOTCH1  and  PTK2B\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Found a path!\n",
      "[['NOTCH1', 'RELB', 'SRC', 'PTK2B'], ['NOTCH1', 'RELB', 'PTK2', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P15407_P17275', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P05412_P53539', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P05412_P17535', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P17275_P53539', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P05412_P15407', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P05412_P17275', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P01100_P17275', 'PTK2B'], ['NOTCH1', 'SP3', 'JUND', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P05412_P15408', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P01100_P05412', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P17535_P53539', 'PTK2B'], ['NOTCH1', 'SP3', 'SRC', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P15408_P17535', 'PTK2B'], ['NOTCH1', 'SP3', 'JUN', 'PTK2B'], ['NOTCH1', 'SP3', 'JUNB', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P15408_P17275', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P01100_P17535', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P15407_P17535', 'PTK2B'], ['NOTCH1', 'SP3', 'COMPLEX:P17275_P17535', 'PTK2B'], ['NOTCH1', 'COL1A1', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:P19838_Q04864', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:P19838_Q04864', 'PTK2', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q00653_Q01201', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q00653_Q01201', 'PTK2', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P15407_P17275', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P05412_P53539', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P05412_P17535', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P17275_P53539', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P05412_P15407', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P05412_P17275', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P01100_P17275', 'PTK2B'], ['NOTCH1', 'CDH2', 'JUND', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P05412_P15408', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P01100_P05412', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P17535_P53539', 'PTK2B'], ['NOTCH1', 'CDH2', 'SRC', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P15408_P17535', 'PTK2B'], ['NOTCH1', 'CDH2', 'JUN', 'PTK2B'], ['NOTCH1', 'CDH2', 'JUNB', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P15408_P17275', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P01100_P17535', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P15407_P17535', 'PTK2B'], ['NOTCH1', 'CDH2', 'COMPLEX:P17275_P17535', 'PTK2B'], ['NOTCH1', 'RELA', 'SRC', 'PTK2B'], ['NOTCH1', 'RELA', 'PTK2', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P15407_P17275', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P05412_P53539', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P05412_P17535', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P17275_P53539', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P05412_P15407', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P05412_P17275', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P01100_P17275', 'PTK2B'], ['NOTCH1', 'PPARG', 'JUND', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P05412_P15408', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P01100_P05412', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P17535_P53539', 'PTK2B'], ['NOTCH1', 'PPARG', 'SRC', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P15408_P17535', 'PTK2B'], ['NOTCH1', 'PPARG', 'JUN', 'PTK2B'], ['NOTCH1', 'PPARG', 'JUNB', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P15408_P17275', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P01100_P17535', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P15407_P17535', 'PTK2B'], ['NOTCH1', 'PPARG', 'COMPLEX:P17275_P17535', 'PTK2B'], ['NOTCH1', 'NFKB1', 'SRC', 'PTK2B'], ['NOTCH1', 'NFKB1', 'PTK2', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P15407_P17275', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P05412_P53539', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P05412_P17535', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P17275_P53539', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P05412_P15407', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P05412_P17275', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P01100_P17275', 'PTK2B'], ['NOTCH1', 'SP1', 'JUND', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P05412_P15408', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P01100_P05412', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P17535_P53539', 'PTK2B'], ['NOTCH1', 'SP1', 'SRC', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P15408_P17535', 'PTK2B'], ['NOTCH1', 'SP1', 'JUN', 'PTK2B'], ['NOTCH1', 'SP1', 'JUNB', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P15408_P17275', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P01100_P17535', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P15407_P17535', 'PTK2B'], ['NOTCH1', 'SP1', 'COMPLEX:P17275_P17535', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q00653_Q04206', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q00653_Q04206', 'PTK2', 'PTK2B'], ['NOTCH1', 'COMPLEX:P19838_Q04206', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:P19838_Q04206', 'PTK2', 'PTK2B'], ['NOTCH1', 'COMPLEX:P19838_Q01201', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:P19838_Q01201', 'PTK2', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q04206_Q04864', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q04206_Q04864', 'PTK2', 'PTK2B'], ['NOTCH1', 'COMPLEX:P19838_Q00653', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:P19838_Q00653', 'PTK2', 'PTK2B'], ['NOTCH1', 'REL', 'SRC', 'PTK2B'], ['NOTCH1', 'REL', 'PTK2', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P15407_P17275', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P05412_P53539', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P05412_P17535', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P17275_P53539', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P05412_P15407', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P05412_P17275', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P01100_P17275', 'PTK2B'], ['NOTCH1', 'NFKB1', 'JUND', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P05412_P15408', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P01100_P05412', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P17535_P53539', 'PTK2B'], ['NOTCH1', 'NFKB1', 'SRC', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P15408_P17535', 'PTK2B'], ['NOTCH1', 'NFKB1', 'JUN', 'PTK2B'], ['NOTCH1', 'NFKB1', 'JUNB', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P15408_P17275', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P01100_P17535', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P15407_P17535', 'PTK2B'], ['NOTCH1', 'NFKB1', 'COMPLEX:P17275_P17535', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q01201_Q04206', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q01201_Q04206', 'PTK2', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q01201_Q04864', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q01201_Q04864', 'PTK2', 'PTK2B'], ['NOTCH1', 'NFKB2', 'SRC', 'PTK2B'], ['NOTCH1', 'NFKB2', 'PTK2', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q00653_Q04864', 'SRC', 'PTK2B'], ['NOTCH1', 'COMPLEX:Q00653_Q04864', 'PTK2', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  NOTCH1  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  NOTCH1  and  COL1A1\n",
      "Found a path!\n",
      "[['NOTCH1', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  CDH1\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  CDH1\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  CDH1\n",
      "Found a path!\n",
      "[['PTK2', 'RELB', 'CDH1'], ['PTK2', 'COMPLEX:P19838_Q04864', 'CDH1'], ['PTK2', 'COMPLEX:Q00653_Q01201', 'CDH1'], ['PTK2', 'SRC', 'CDH1'], ['PTK2', 'RELA', 'CDH1'], ['PTK2', 'NFKB1', 'CDH1'], ['PTK2', 'COMPLEX:Q00653_Q04206', 'CDH1'], ['PTK2', 'COMPLEX:P19838_Q04206', 'CDH1'], ['PTK2', 'COMPLEX:P19838_Q01201', 'CDH1'], ['PTK2', 'COMPLEX:Q04206_Q04864', 'CDH1'], ['PTK2', 'COMPLEX:P19838_Q00653', 'CDH1'], ['PTK2', 'REL', 'CDH1'], ['PTK2', 'COMPLEX:Q01201_Q04206', 'CDH1'], ['PTK2', 'COMPLEX:Q01201_Q04864', 'CDH1'], ['PTK2', 'NFKB2', 'CDH1'], ['PTK2', 'COMPLEX:Q00653_Q04864', 'CDH1']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  CDH2\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  CDH2\n",
      "Found a path!\n",
      "[['PTK2', 'RELB', 'CDH2'], ['PTK2', 'COMPLEX:P19838_Q04864', 'CDH2'], ['PTK2', 'COMPLEX:Q00653_Q01201', 'CDH2'], ['PTK2', 'SRC', 'CDH2'], ['PTK2', 'RELA', 'CDH2'], ['PTK2', 'NFKB1', 'CDH2'], ['PTK2', 'COMPLEX:Q00653_Q04206', 'CDH2'], ['PTK2', 'COMPLEX:P19838_Q04206', 'CDH2'], ['PTK2', 'COMPLEX:P19838_Q01201', 'CDH2'], ['PTK2', 'COMPLEX:Q04206_Q04864', 'CDH2'], ['PTK2', 'COMPLEX:P19838_Q00653', 'CDH2'], ['PTK2', 'REL', 'CDH2'], ['PTK2', 'COMPLEX:Q01201_Q04206', 'CDH2'], ['PTK2', 'COMPLEX:Q01201_Q04864', 'CDH2'], ['PTK2', 'NFKB2', 'CDH2'], ['PTK2', 'COMPLEX:Q00653_Q04864', 'CDH2']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  VIM\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  VIM\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  VIM\n",
      "Found a path!\n",
      "[['PTK2', 'RELB', 'VIM'], ['PTK2', 'COMPLEX:P19838_Q04864', 'VIM'], ['PTK2', 'COMPLEX:Q00653_Q01201', 'VIM'], ['PTK2', 'RELA', 'VIM'], ['PTK2', 'NFKB1', 'VIM'], ['PTK2', 'COMPLEX:Q00653_Q04206', 'VIM'], ['PTK2', 'COMPLEX:P19838_Q04206', 'VIM'], ['PTK2', 'COMPLEX:P19838_Q01201', 'VIM'], ['PTK2', 'COMPLEX:Q04206_Q04864', 'VIM'], ['PTK2', 'COMPLEX:P19838_Q00653', 'VIM'], ['PTK2', 'REL', 'VIM'], ['PTK2', 'COMPLEX:Q01201_Q04206', 'VIM'], ['PTK2', 'COMPLEX:Q01201_Q04864', 'VIM'], ['PTK2', 'NFKB2', 'VIM'], ['PTK2', 'COMPLEX:Q00653_Q04864', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  MAP4K4\n",
      "Found a path!\n",
      "[['PTK2', 'EPHB1', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  PTK2B\n",
      "Found a path!\n",
      "[['PTK2', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  PTK2  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  PTK2  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  PTK2  and  COL1A1\n",
      "Found a path!\n",
      "[['PTK2', 'SRC', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  CDH2\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  CDH2\n",
      "Found a path!\n",
      "[['CDH1', 'COMPLEX:P15407_P17275', 'CDH2'], ['CDH1', 'COMPLEX:P05412_P53539', 'CDH2'], ['CDH1', 'COMPLEX:P05412_P17535', 'CDH2'], ['CDH1', 'COMPLEX:P17275_P53539', 'CDH2'], ['CDH1', 'COMPLEX:P05412_P15407', 'CDH2'], ['CDH1', 'COMPLEX:P05412_P17275', 'CDH2'], ['CDH1', 'COMPLEX:P01100_P17275', 'CDH2'], ['CDH1', 'NFKB1', 'CDH2'], ['CDH1', 'COMPLEX:P19838_Q04206', 'CDH2'], ['CDH1', 'JUND', 'CDH2'], ['CDH1', 'COMPLEX:P19838_Q00653', 'CDH2'], ['CDH1', 'REL', 'CDH2'], ['CDH1', 'COMPLEX:Q01201_Q04206', 'CDH2'], ['CDH1', 'COMPLEX:Q01201_Q04864', 'CDH2'], ['CDH1', 'NFKB2', 'CDH2'], ['CDH1', 'RELB', 'CDH2'], ['CDH1', 'COMPLEX:P05412_P15408', 'CDH2'], ['CDH1', 'COMPLEX:P19838_Q04864', 'CDH2'], ['CDH1', 'COMPLEX:Q00653_Q01201', 'CDH2'], ['CDH1', 'COMPLEX:P01100_P05412', 'CDH2'], ['CDH1', 'COMPLEX:P17535_P53539', 'CDH2'], ['CDH1', 'SRC', 'CDH2'], ['CDH1', 'COMPLEX:P15408_P17535', 'CDH2'], ['CDH1', 'JUN', 'CDH2'], ['CDH1', 'JUNB', 'CDH2'], ['CDH1', 'RELA', 'CDH2'], ['CDH1', 'PPARG', 'CDH2'], ['CDH1', 'COMPLEX:Q00653_Q04206', 'CDH2'], ['CDH1', 'COMPLEX:P19838_Q01201', 'CDH2'], ['CDH1', 'COMPLEX:P15408_P17275', 'CDH2'], ['CDH1', 'COMPLEX:P01100_P17535', 'CDH2'], ['CDH1', 'COMPLEX:Q04206_Q04864', 'CDH2'], ['CDH1', 'COMPLEX:P15407_P17535', 'CDH2'], ['CDH1', 'COMPLEX:P17275_P17535', 'CDH2'], ['CDH1', 'COMPLEX:Q00653_Q04864', 'CDH2']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  VIM\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  VIM\n",
      "Found a path!\n",
      "[['CDH1', 'COMPLEX:P15407_P17275', 'VIM'], ['CDH1', 'COMPLEX:P05412_P53539', 'VIM'], ['CDH1', 'COMPLEX:P05412_P17535', 'VIM'], ['CDH1', 'COMPLEX:P17275_P53539', 'VIM'], ['CDH1', 'COMPLEX:P05412_P15407', 'VIM'], ['CDH1', 'COMPLEX:P05412_P17275', 'VIM'], ['CDH1', 'COMPLEX:P01100_P17275', 'VIM'], ['CDH1', 'NFKB1', 'VIM'], ['CDH1', 'COMPLEX:P19838_Q04206', 'VIM'], ['CDH1', 'JUND', 'VIM'], ['CDH1', 'COMPLEX:P19838_Q00653', 'VIM'], ['CDH1', 'REL', 'VIM'], ['CDH1', 'COMPLEX:Q01201_Q04206', 'VIM'], ['CDH1', 'COMPLEX:Q01201_Q04864', 'VIM'], ['CDH1', 'NFKB2', 'VIM'], ['CDH1', 'RELB', 'VIM'], ['CDH1', 'COMPLEX:P05412_P15408', 'VIM'], ['CDH1', 'COMPLEX:P19838_Q04864', 'VIM'], ['CDH1', 'COMPLEX:Q00653_Q01201', 'VIM'], ['CDH1', 'COMPLEX:P01100_P05412', 'VIM'], ['CDH1', 'COMPLEX:P17535_P53539', 'VIM'], ['CDH1', 'COMPLEX:P15408_P17535', 'VIM'], ['CDH1', 'JUN', 'VIM'], ['CDH1', 'JUNB', 'VIM'], ['CDH1', 'RELA', 'VIM'], ['CDH1', 'COMPLEX:Q00653_Q04206', 'VIM'], ['CDH1', 'COMPLEX:P19838_Q01201', 'VIM'], ['CDH1', 'COMPLEX:P15408_P17275', 'VIM'], ['CDH1', 'COMPLEX:P01100_P17535', 'VIM'], ['CDH1', 'COMPLEX:Q04206_Q04864', 'VIM'], ['CDH1', 'COMPLEX:P15407_P17535', 'VIM'], ['CDH1', 'COMPLEX:P17275_P17535', 'VIM'], ['CDH1', 'COMPLEX:Q00653_Q04864', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  MAP4K4\n",
      "Found a path!\n",
      "[['CDH1', 'PPARG', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  PTK2B\n",
      "Found a path!\n",
      "[['CDH1', 'COMPLEX:P15407_P17275', 'PTK2B'], ['CDH1', 'COMPLEX:P05412_P53539', 'PTK2B'], ['CDH1', 'COMPLEX:P05412_P17535', 'PTK2B'], ['CDH1', 'COMPLEX:P17275_P53539', 'PTK2B'], ['CDH1', 'COMPLEX:P05412_P15407', 'PTK2B'], ['CDH1', 'COMPLEX:P05412_P17275', 'PTK2B'], ['CDH1', 'COMPLEX:P01100_P17275', 'PTK2B'], ['CDH1', 'JUND', 'PTK2B'], ['CDH1', 'COMPLEX:P05412_P15408', 'PTK2B'], ['CDH1', 'COMPLEX:P01100_P05412', 'PTK2B'], ['CDH1', 'COMPLEX:P17535_P53539', 'PTK2B'], ['CDH1', 'SRC', 'PTK2B'], ['CDH1', 'COMPLEX:P15408_P17535', 'PTK2B'], ['CDH1', 'JUN', 'PTK2B'], ['CDH1', 'JUNB', 'PTK2B'], ['CDH1', 'COMPLEX:P15408_P17275', 'PTK2B'], ['CDH1', 'COMPLEX:P01100_P17535', 'PTK2B'], ['CDH1', 'COMPLEX:P15407_P17535', 'PTK2B'], ['CDH1', 'COMPLEX:P17275_P17535', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  CDH1  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  CDH1  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  CDH1  and  COL1A1\n",
      "Found a path!\n",
      "[['CDH1', 'SRC', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  VIM\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  VIM\n",
      "Found a path!\n",
      "[['CDH2', 'COMPLEX:P15407_P17275', 'VIM'], ['CDH2', 'COMPLEX:P05412_P53539', 'VIM'], ['CDH2', 'COMPLEX:P05412_P17535', 'VIM'], ['CDH2', 'COMPLEX:P17275_P53539', 'VIM'], ['CDH2', 'COMPLEX:P05412_P15407', 'VIM'], ['CDH2', 'COMPLEX:P05412_P17275', 'VIM'], ['CDH2', 'COMPLEX:P01100_P17275', 'VIM'], ['CDH2', 'NFKB1', 'VIM'], ['CDH2', 'COMPLEX:P19838_Q04206', 'VIM'], ['CDH2', 'JUND', 'VIM'], ['CDH2', 'COMPLEX:P19838_Q00653', 'VIM'], ['CDH2', 'REL', 'VIM'], ['CDH2', 'COMPLEX:Q01201_Q04206', 'VIM'], ['CDH2', 'COMPLEX:Q01201_Q04864', 'VIM'], ['CDH2', 'NFKB2', 'VIM'], ['CDH2', 'RELB', 'VIM'], ['CDH2', 'COMPLEX:P05412_P15408', 'VIM'], ['CDH2', 'COMPLEX:P19838_Q04864', 'VIM'], ['CDH2', 'COMPLEX:Q00653_Q01201', 'VIM'], ['CDH2', 'COMPLEX:P01100_P05412', 'VIM'], ['CDH2', 'COMPLEX:P17535_P53539', 'VIM'], ['CDH2', 'COMPLEX:P15408_P17535', 'VIM'], ['CDH2', 'JUN', 'VIM'], ['CDH2', 'JUNB', 'VIM'], ['CDH2', 'RELA', 'VIM'], ['CDH2', 'COMPLEX:Q00653_Q04206', 'VIM'], ['CDH2', 'COMPLEX:P19838_Q01201', 'VIM'], ['CDH2', 'COMPLEX:P15408_P17275', 'VIM'], ['CDH2', 'COMPLEX:P01100_P17535', 'VIM'], ['CDH2', 'COMPLEX:Q04206_Q04864', 'VIM'], ['CDH2', 'COMPLEX:P15407_P17535', 'VIM'], ['CDH2', 'COMPLEX:P17275_P17535', 'VIM'], ['CDH2', 'COMPLEX:Q00653_Q04864', 'VIM']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  MAP4K4\n",
      "Found a path!\n",
      "[['CDH2', 'PPARG', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  PTK2B\n",
      "Found a path!\n",
      "[['CDH2', 'COMPLEX:P15407_P17275', 'PTK2B'], ['CDH2', 'COMPLEX:P05412_P53539', 'PTK2B'], ['CDH2', 'COMPLEX:P05412_P17535', 'PTK2B'], ['CDH2', 'COMPLEX:P17275_P53539', 'PTK2B'], ['CDH2', 'COMPLEX:P05412_P15407', 'PTK2B'], ['CDH2', 'COMPLEX:P05412_P17275', 'PTK2B'], ['CDH2', 'COMPLEX:P01100_P17275', 'PTK2B'], ['CDH2', 'JUND', 'PTK2B'], ['CDH2', 'COMPLEX:P05412_P15408', 'PTK2B'], ['CDH2', 'COMPLEX:P01100_P05412', 'PTK2B'], ['CDH2', 'COMPLEX:P17535_P53539', 'PTK2B'], ['CDH2', 'SRC', 'PTK2B'], ['CDH2', 'COMPLEX:P15408_P17535', 'PTK2B'], ['CDH2', 'JUN', 'PTK2B'], ['CDH2', 'JUNB', 'PTK2B'], ['CDH2', 'COMPLEX:P15408_P17275', 'PTK2B'], ['CDH2', 'COMPLEX:P01100_P17535', 'PTK2B'], ['CDH2', 'COMPLEX:P15407_P17535', 'PTK2B'], ['CDH2', 'COMPLEX:P17275_P17535', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  CDH2  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  CDH2  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  CDH2  and  COL1A1\n",
      "Found a path!\n",
      "[['CDH2', 'SRC', 'COL1A1'], ['CDH2', 'NOTCH1', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  1  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  2  for node  VIM  and  MAP4K4\n",
      "looking for paths in the network with length:  3  for node  VIM  and  MAP4K4\n",
      "Found a path!\n",
      "[['VIM', 'STAT5A', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P15407_P17275', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P05412_P53539', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P05412_P17535', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P17275_P53539', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P05412_P15407', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P05412_P17275', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P01100_P17275', 'PPARG', 'MAP4K4'], ['VIM', 'NFKB1', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P19838_Q04206', 'PPARG', 'MAP4K4'], ['VIM', 'JUND', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P19838_Q00653', 'PPARG', 'MAP4K4'], ['VIM', 'REL', 'PPARG', 'MAP4K4'], ['VIM', 'NFKB1', 'MAP3K2', 'MAP4K4'], ['VIM', 'NFKB1', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:Q01201_Q04206', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:Q01201_Q04864', 'PPARG', 'MAP4K4'], ['VIM', 'NFKB2', 'PPARG', 'MAP4K4'], ['VIM', 'RELB', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P05412_P15408', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P19838_Q04864', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:Q00653_Q01201', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P01100_P05412', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P17535_P53539', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P15408_P17535', 'PPARG', 'MAP4K4'], ['VIM', 'JUN', 'PPARG', 'MAP4K4'], ['VIM', 'JUNB', 'PPARG', 'MAP4K4'], ['VIM', 'RELA', 'PPARG', 'MAP4K4'], ['VIM', 'SP1', 'EPHB1', 'MAP4K4'], ['VIM', 'SP1', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:Q00653_Q04206', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P19838_Q01201', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P15408_P17275', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P01100_P17535', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:Q04206_Q04864', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P15407_P17535', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:P17275_P17535', 'PPARG', 'MAP4K4'], ['VIM', 'COMPLEX:Q00653_Q04864', 'PPARG', 'MAP4K4']]\n",
      "looking for paths in the network with length:  0  for node  VIM  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  VIM  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  VIM  and  PTK2B\n",
      "Found a path!\n",
      "[['VIM', 'COMPLEX:P15407_P17275', 'PTK2B'], ['VIM', 'COMPLEX:P05412_P53539', 'PTK2B'], ['VIM', 'COMPLEX:P05412_P17535', 'PTK2B'], ['VIM', 'COMPLEX:P17275_P53539', 'PTK2B'], ['VIM', 'COMPLEX:P05412_P15407', 'PTK2B'], ['VIM', 'COMPLEX:P05412_P17275', 'PTK2B'], ['VIM', 'COMPLEX:P01100_P17275', 'PTK2B'], ['VIM', 'JUND', 'PTK2B'], ['VIM', 'COMPLEX:P05412_P15408', 'PTK2B'], ['VIM', 'COMPLEX:P01100_P05412', 'PTK2B'], ['VIM', 'COMPLEX:P17535_P53539', 'PTK2B'], ['VIM', 'COMPLEX:P15408_P17535', 'PTK2B'], ['VIM', 'JUN', 'PTK2B'], ['VIM', 'JUNB', 'PTK2B'], ['VIM', 'COMPLEX:P15408_P17275', 'PTK2B'], ['VIM', 'COMPLEX:P01100_P17535', 'PTK2B'], ['VIM', 'COMPLEX:P15407_P17535', 'PTK2B'], ['VIM', 'COMPLEX:P17275_P17535', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  VIM  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  VIM  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  VIM  and  COL1A1\n",
      "Found a path!\n",
      "[['VIM', 'SP3', 'COL1A1'], ['VIM', 'NFKB1', 'COL1A1'], ['VIM', 'SP1', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  MAP4K4  and  PTK2B\n",
      "looking for paths in the network with length:  1  for node  MAP4K4  and  PTK2B\n",
      "looking for paths in the network with length:  2  for node  MAP4K4  and  PTK2B\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "looking for paths in the network with length:  3  for node  MAP4K4  and  PTK2B\n",
      "Found a path!\n",
      "[['MAP4K4', 'EPHB1', 'PTK2', 'PTK2B'], ['MAP4K4', 'EPHB1', 'SRC', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P15407_P17275', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P05412_P53539', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P05412_P17535', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P17275_P53539', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P05412_P15407', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P05412_P17275', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P01100_P17275', 'PTK2B'], ['MAP4K4', 'PPARG', 'JUND', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P05412_P15408', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P01100_P05412', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P17535_P53539', 'PTK2B'], ['MAP4K4', 'PPARG', 'SRC', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P15408_P17535', 'PTK2B'], ['MAP4K4', 'PPARG', 'JUN', 'PTK2B'], ['MAP4K4', 'PPARG', 'JUNB', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P15408_P17275', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P01100_P17535', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P15407_P17535', 'PTK2B'], ['MAP4K4', 'PPARG', 'COMPLEX:P17275_P17535', 'PTK2B'], ['MAP4K4', 'MAP3K2', 'SRC', 'PTK2B']]\n",
      "looking for paths in the network with length:  0  for node  MAP4K4  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  MAP4K4  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  MAP4K4  and  COL1A1\n",
      "looking for paths in the network with length:  3  for node  MAP4K4  and  COL1A1\n",
      "Found a path!\n",
      "[['MAP4K4', 'EPHB1', 'SP1', 'COL1A1'], ['MAP4K4', 'EPHB1', 'SRC', 'COL1A1'], ['MAP4K4', 'PPARG', 'NFKB1', 'COL1A1'], ['MAP4K4', 'PPARG', 'SRC', 'COL1A1'], ['MAP4K4', 'PPARG', 'NOTCH1', 'COL1A1'], ['MAP4K4', 'PPARG', 'SP1', 'COL1A1'], ['MAP4K4', 'MAP3K2', 'NFKB1', 'COL1A1'], ['MAP4K4', 'MAP3K2', 'SRC', 'COL1A1']]\n",
      "looking for paths in the network with length:  0  for node  PTK2B  and  COL1A1\n",
      "looking for paths in the network with length:  1  for node  PTK2B  and  COL1A1\n",
      "looking for paths in the network with length:  2  for node  PTK2B  and  COL1A1\n",
      "Found a path!\n",
      "[['PTK2B', 'SRC', 'COL1A1']]\n",
      "CPU times: user 2min 4s, sys: 36.8 ms, total: 2min 4s\n",
      "Wall time: 2min 4s\n"
     ]
    }
   ],
   "source": [
    "%%time\n",
    "new_net1.complete_connection(mode=\"ALL\", maxlen=6, k_mean=\"tight\", only_signed=True,\n",
    "                            consensus=True, connect_node_when_first_introduced=True)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 17,
   "id": "db61c89d",
   "metadata": {},
   "outputs": [
    {
     "data": {
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       "<path fill=\"none\" stroke=\"green\" d=\"M6676.56,-301.65C6525.87,-289.74 6017.75,-249.6 5872.24,-238.1\"/>\n",
       "<polygon fill=\"green\" stroke=\"green\" points=\"5872.25,-234.59 5862.01,-237.29 5871.7,-241.57 5872.25,-234.59\"/>\n",
       "</g>\n",
       "<!-- PPARG&#45;&gt;STAT5A -->\n",
       "<g id=\"edge374\" class=\"edge\">\n",
       "<title>PPARG&#45;&gt;STAT5A</title>\n",
       "<path fill=\"none\" stroke=\"red\" d=\"M6675.48,-303.84C6563.89,-300.88 6258.49,-292.98 6004,-288 4616.47,-260.87 2915.55,-239.53 2598.25,-235.63\"/>\n",
       "<polygon fill=\"red\" stroke=\"red\" points=\"2593.72,-240.58 2593.85,-230.58 2595.85,-230.61 2595.72,-240.6 2593.72,-240.58\"/>\n",
       "<polyline fill=\"none\" stroke=\"red\" points=\"2592.79,-235.57 2597.78,-235.63 \"/>\n",
       "</g>\n",
       "<!-- PPARG&#45;&gt;MAP4K4 -->\n",
       "<g id=\"edge351\" class=\"edge\">\n",
       "<title>PPARG&#45;&gt;MAP4K4</title>\n",
       "<path fill=\"none\" stroke=\"red\" d=\"M6706.7,-288.56C6684.35,-258.93 6635.16,-194.91 6590,-144 6580.03,-132.76 6568.36,-120.77 6558.61,-111.05\"/>\n",
       "<polygon fill=\"red\" stroke=\"red\" points=\"6552.02,-111.55 6559.07,-104.46 6560.49,-105.86 6553.44,-112.96 6552.02,-111.55\"/>\n",
       "<polyline fill=\"none\" stroke=\"red\" points=\"6554.83,-107.3 6558.38,-110.82 \"/>\n",
       "</g>\n",
       "</g>\n",
       "</svg>\n"
      ],
      "text/plain": [
       "<graphviz.graphs.Digraph at 0x7ff31d7403d0>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "visualizer = NetworkVisualizer(new_net1, color_by='effect')\n",
    "visualizer.render()"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "8361d2b2-646b-4080-bc36-ca28c9bfab10",
   "metadata": {},
   "source": [
    "## The whole tool, as the name suggest, is based on Omnipath. But the user can also integrate its own databases. As example, we show how to integrate the Signor database. In order to do so, the User needs to have already downloaded the whole Signor database, available at the following link: https://signor.uniroma2.it/downloads.php \n",
    "## Omniflow has been conceived to be a modular tool, with the possibility to add new databases. Every time a User wants to add a database, it should prepare an apposite function in the Resources module, in order to convert the target database, in the Omniflow format. We suggest to use as example, the function created for the Signor database. In future releases we plan to add more function to include more databases."
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 16,
   "id": "4fd4b190-350a-4682-8f09-8c6423064038",
   "metadata": {},
   "outputs": [],
   "source": [
    "resources = Resources()\n",
    "resources.import_signor_tsv(\"./all_data_18_03_24.tsv\") # this function accept only tab separated values"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 23,
   "id": "1ee6984a-1a6e-410e-b335-9acc1359b359",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "CPU times: user 32.3 ms, sys: 2 µs, total: 32.3 ms\n",
      "Wall time: 31.6 ms\n"
     ]
    }
   ],
   "source": [
    "%%time\n",
    "new_net1 = Network(genes, resources=resources.interactions) # here we load the signor interactions"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "7aae5ca7-5696-44ba-9e75-4a2d1eb0a2d9",
   "metadata": {},
   "source": [
    "## It is important to note, that not all the databases have the same structure as Omnipath. In particular, if the columns \"consensus\" are missing, we suggest to avoid to use the flag \"consensus\" or \"consensus_only\" when using Omniflow with customize databases."
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 24,
   "id": "12052b3b-854f-41a0-a762-20de5cbc7b35",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "looking for paths in the network with length:  0  for node  FOXA1  and  GRHL1\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  GRHL1\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  GRHL1\n",
      "looking for paths in the network with length:  3  for node  FOXA1  and  GRHL1\n",
      "looking for paths in the network with length:  4  for node  FOXA1  and  GRHL1\n",
      "looking for paths in the network with length:  5  for node  FOXA1  and  GRHL1\n",
      "looking for paths in the network with length:  6  for node  FOXA1  and  GRHL1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  FOXA1  and  GRHL1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  FOXA1  and  GRHL1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  FOXA1  and  GRHL1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  FOXA1  and  GRHL1\n",
      "looking for paths in the network with length:  0  for node  FOXA1  and  GRHL3\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  GRHL3\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  GRHL3\n",
      "looking for paths in the network with length:  3  for node  FOXA1  and  GRHL3\n",
      "looking for paths in the network with length:  4  for node  FOXA1  and  GRHL3\n",
      "looking for paths in the network with length:  5  for node  FOXA1  and  GRHL3\n",
      "looking for paths in the network with length:  6  for node  FOXA1  and  GRHL3\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  FOXA1  and  GRHL3\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  FOXA1  and  GRHL3\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  FOXA1  and  GRHL3\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  FOXA1  and  GRHL3\n",
      "looking for paths in the network with length:  0  for node  FOXA1  and  EHF\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  EHF\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  EHF\n",
      "looking for paths in the network with length:  3  for node  FOXA1  and  EHF\n",
      "looking for paths in the network with length:  4  for node  FOXA1  and  EHF\n",
      "looking for paths in the network with length:  5  for node  FOXA1  and  EHF\n",
      "looking for paths in the network with length:  6  for node  FOXA1  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  FOXA1  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  FOXA1  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  FOXA1  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  FOXA1  and  EHF\n",
      "looking for paths in the network with length:  0  for node  FOXA1  and  KLF5\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  KLF5\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  KLF5\n",
      "looking for paths in the network with length:  3  for node  FOXA1  and  KLF5\n",
      "looking for paths in the network with length:  4  for node  FOXA1  and  KLF5\n",
      "looking for paths in the network with length:  5  for node  FOXA1  and  KLF5\n",
      "looking for paths in the network with length:  6  for node  FOXA1  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  FOXA1  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  FOXA1  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  FOXA1  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  FOXA1  and  KLF5\n",
      "[['FOXA1', 'HSPA1A', 'NR3C1', 'KLF5'], ['FOXA1', 'AR', 'NR3C1', 'KLF5']]\n",
      "P55317 P0DMV8\n",
      "P0DMV8 P04150\n",
      "P04150 Q13887\n",
      "P55317 P10275\n",
      "P10275 P04150\n",
      "P04150 Q13887\n",
      "P55317 P0DMV8\n",
      "P55317 P10275\n",
      "P17676 Q13887\n",
      "P04150 Q13887\n",
      "P04150 P17676\n",
      "P0DMV8 P04150\n",
      "P04150 P10275\n",
      "P10275 P04150\n",
      "looking for paths in the network with length:  0  for node  FOXA1  and  HOXA9\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  HOXA9\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  HOXA9\n",
      "looking for paths in the network with length:  3  for node  FOXA1  and  HOXA9\n",
      "looking for paths in the network with length:  4  for node  FOXA1  and  HOXA9\n",
      "looking for paths in the network with length:  5  for node  FOXA1  and  HOXA9\n",
      "looking for paths in the network with length:  6  for node  FOXA1  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  FOXA1  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  FOXA1  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  FOXA1  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  FOXA1  and  HOXA9\n",
      "[['FOXA1', 'NFIB', 'EZH2', 'HOXA9']]\n",
      "P55317 O00712\n",
      "O00712 Q15910\n",
      "Q15910 P31269\n",
      "P55317 P0DMV8\n",
      "P55317 P10275\n",
      "P55317 O00712\n",
      "P17676 Q13887\n",
      "P04150 Q13887\n",
      "Q15910 P31269\n",
      "Q15910 P31260\n",
      "O00712 P41161\n",
      "P04150 P17676\n",
      "P0DMV8 P04150\n",
      "P04150 P10275\n",
      "P10275 P04150\n",
      "Q15910 P10275\n",
      "O00712 Q15910\n",
      "looking for paths in the network with length:  0  for node  FOXA1  and  HOXA10\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  HOXA10\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  HOXA10\n",
      "looking for paths in the network with length:  3  for node  FOXA1  and  HOXA10\n",
      "Found a path!\n",
      "[['FOXA1', 'NFIB', 'EZH2', 'HOXA10']]\n",
      "looking for paths in the network with length:  0  for node  FOXA1  and  ETV4\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  ETV4\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  ETV4\n",
      "looking for paths in the network with length:  3  for node  FOXA1  and  ETV4\n",
      "looking for paths in the network with length:  4  for node  FOXA1  and  ETV4\n",
      "looking for paths in the network with length:  5  for node  FOXA1  and  ETV4\n",
      "looking for paths in the network with length:  6  for node  FOXA1  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  FOXA1  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  FOXA1  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  FOXA1  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  FOXA1  and  ETV4\n",
      "looking for paths in the network with length:  0  for node  FOXA1  and  ETV5\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  ETV5\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  ETV5\n",
      "Found a path!\n",
      "[['FOXA1', 'NFIB', 'ETV5']]\n",
      "looking for paths in the network with length:  0  for node  FOXA1  and  POU3F1\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  POU3F1\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  POU3F1\n",
      "looking for paths in the network with length:  3  for node  FOXA1  and  POU3F1\n",
      "looking for paths in the network with length:  4  for node  FOXA1  and  POU3F1\n",
      "looking for paths in the network with length:  5  for node  FOXA1  and  POU3F1\n",
      "looking for paths in the network with length:  6  for node  FOXA1  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  FOXA1  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  FOXA1  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  FOXA1  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  FOXA1  and  POU3F1\n",
      "looking for paths in the network with length:  0  for node  FOXA1  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  FOXA1  and  CEBPB\n",
      "looking for paths in the network with length:  2  for node  FOXA1  and  CEBPB\n",
      "looking for paths in the network with length:  3  for node  FOXA1  and  CEBPB\n",
      "Found a path!\n",
      "[['FOXA1', 'HSPA1A', 'NR3C1', 'CEBPB'], ['FOXA1', 'AR', 'NR3C1', 'CEBPB']]\n",
      "looking for paths in the network with length:  0  for node  GRHL1  and  GRHL3\n",
      "looking for paths in the network with length:  1  for node  GRHL1  and  GRHL3\n",
      "looking for paths in the network with length:  2  for node  GRHL1  and  GRHL3\n",
      "looking for paths in the network with length:  3  for node  GRHL1  and  GRHL3\n",
      "looking for paths in the network with length:  4  for node  GRHL1  and  GRHL3\n",
      "looking for paths in the network with length:  5  for node  GRHL1  and  GRHL3\n",
      "looking for paths in the network with length:  6  for node  GRHL1  and  GRHL3\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL1  and  GRHL3\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL1  and  GRHL3\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL1  and  GRHL3\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL1  and  GRHL3\n",
      "looking for paths in the network with length:  0  for node  GRHL1  and  EHF\n",
      "looking for paths in the network with length:  1  for node  GRHL1  and  EHF\n",
      "looking for paths in the network with length:  2  for node  GRHL1  and  EHF\n",
      "looking for paths in the network with length:  3  for node  GRHL1  and  EHF\n",
      "looking for paths in the network with length:  4  for node  GRHL1  and  EHF\n",
      "looking for paths in the network with length:  5  for node  GRHL1  and  EHF\n",
      "looking for paths in the network with length:  6  for node  GRHL1  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL1  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL1  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL1  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL1  and  EHF\n",
      "looking for paths in the network with length:  0  for node  GRHL1  and  KLF5\n",
      "looking for paths in the network with length:  1  for node  GRHL1  and  KLF5\n",
      "looking for paths in the network with length:  2  for node  GRHL1  and  KLF5\n",
      "looking for paths in the network with length:  3  for node  GRHL1  and  KLF5\n",
      "looking for paths in the network with length:  4  for node  GRHL1  and  KLF5\n",
      "looking for paths in the network with length:  5  for node  GRHL1  and  KLF5\n",
      "looking for paths in the network with length:  6  for node  GRHL1  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL1  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL1  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL1  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL1  and  KLF5\n",
      "looking for paths in the network with length:  0  for node  GRHL1  and  HOXA9\n",
      "looking for paths in the network with length:  1  for node  GRHL1  and  HOXA9\n",
      "looking for paths in the network with length:  2  for node  GRHL1  and  HOXA9\n",
      "looking for paths in the network with length:  3  for node  GRHL1  and  HOXA9\n",
      "looking for paths in the network with length:  4  for node  GRHL1  and  HOXA9\n",
      "looking for paths in the network with length:  5  for node  GRHL1  and  HOXA9\n",
      "looking for paths in the network with length:  6  for node  GRHL1  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL1  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL1  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL1  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL1  and  HOXA9\n",
      "looking for paths in the network with length:  0  for node  GRHL1  and  HOXA10\n",
      "looking for paths in the network with length:  1  for node  GRHL1  and  HOXA10\n",
      "looking for paths in the network with length:  2  for node  GRHL1  and  HOXA10\n",
      "looking for paths in the network with length:  3  for node  GRHL1  and  HOXA10\n",
      "looking for paths in the network with length:  4  for node  GRHL1  and  HOXA10\n",
      "looking for paths in the network with length:  5  for node  GRHL1  and  HOXA10\n",
      "looking for paths in the network with length:  6  for node  GRHL1  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL1  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL1  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL1  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL1  and  HOXA10\n",
      "looking for paths in the network with length:  0  for node  GRHL1  and  ETV4\n",
      "looking for paths in the network with length:  1  for node  GRHL1  and  ETV4\n",
      "looking for paths in the network with length:  2  for node  GRHL1  and  ETV4\n",
      "looking for paths in the network with length:  3  for node  GRHL1  and  ETV4\n",
      "looking for paths in the network with length:  4  for node  GRHL1  and  ETV4\n",
      "looking for paths in the network with length:  5  for node  GRHL1  and  ETV4\n",
      "looking for paths in the network with length:  6  for node  GRHL1  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL1  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL1  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL1  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL1  and  ETV4\n",
      "looking for paths in the network with length:  0  for node  GRHL1  and  ETV5\n",
      "looking for paths in the network with length:  1  for node  GRHL1  and  ETV5\n",
      "looking for paths in the network with length:  2  for node  GRHL1  and  ETV5\n",
      "looking for paths in the network with length:  3  for node  GRHL1  and  ETV5\n",
      "looking for paths in the network with length:  4  for node  GRHL1  and  ETV5\n",
      "looking for paths in the network with length:  5  for node  GRHL1  and  ETV5\n",
      "looking for paths in the network with length:  6  for node  GRHL1  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL1  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL1  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL1  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL1  and  ETV5\n",
      "looking for paths in the network with length:  0  for node  GRHL1  and  POU3F1\n",
      "looking for paths in the network with length:  1  for node  GRHL1  and  POU3F1\n",
      "looking for paths in the network with length:  2  for node  GRHL1  and  POU3F1\n",
      "looking for paths in the network with length:  3  for node  GRHL1  and  POU3F1\n",
      "looking for paths in the network with length:  4  for node  GRHL1  and  POU3F1\n",
      "looking for paths in the network with length:  5  for node  GRHL1  and  POU3F1\n",
      "looking for paths in the network with length:  6  for node  GRHL1  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL1  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL1  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL1  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL1  and  POU3F1\n",
      "looking for paths in the network with length:  0  for node  GRHL1  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  GRHL1  and  CEBPB\n",
      "looking for paths in the network with length:  2  for node  GRHL1  and  CEBPB\n",
      "looking for paths in the network with length:  3  for node  GRHL1  and  CEBPB\n",
      "looking for paths in the network with length:  4  for node  GRHL1  and  CEBPB\n",
      "looking for paths in the network with length:  5  for node  GRHL1  and  CEBPB\n",
      "looking for paths in the network with length:  6  for node  GRHL1  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL1  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL1  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL1  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL1  and  CEBPB\n",
      "looking for paths in the network with length:  0  for node  GRHL3  and  EHF\n",
      "looking for paths in the network with length:  1  for node  GRHL3  and  EHF\n",
      "looking for paths in the network with length:  2  for node  GRHL3  and  EHF\n",
      "looking for paths in the network with length:  3  for node  GRHL3  and  EHF\n",
      "looking for paths in the network with length:  4  for node  GRHL3  and  EHF\n",
      "looking for paths in the network with length:  5  for node  GRHL3  and  EHF\n",
      "looking for paths in the network with length:  6  for node  GRHL3  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL3  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL3  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL3  and  EHF\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL3  and  EHF\n",
      "looking for paths in the network with length:  0  for node  GRHL3  and  KLF5\n",
      "looking for paths in the network with length:  1  for node  GRHL3  and  KLF5\n",
      "looking for paths in the network with length:  2  for node  GRHL3  and  KLF5\n",
      "looking for paths in the network with length:  3  for node  GRHL3  and  KLF5\n",
      "looking for paths in the network with length:  4  for node  GRHL3  and  KLF5\n",
      "looking for paths in the network with length:  5  for node  GRHL3  and  KLF5\n",
      "looking for paths in the network with length:  6  for node  GRHL3  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL3  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL3  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL3  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL3  and  KLF5\n",
      "looking for paths in the network with length:  0  for node  GRHL3  and  HOXA9\n",
      "looking for paths in the network with length:  1  for node  GRHL3  and  HOXA9\n",
      "looking for paths in the network with length:  2  for node  GRHL3  and  HOXA9\n",
      "looking for paths in the network with length:  3  for node  GRHL3  and  HOXA9\n",
      "looking for paths in the network with length:  4  for node  GRHL3  and  HOXA9\n",
      "looking for paths in the network with length:  5  for node  GRHL3  and  HOXA9\n",
      "looking for paths in the network with length:  6  for node  GRHL3  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL3  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL3  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL3  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL3  and  HOXA9\n",
      "looking for paths in the network with length:  0  for node  GRHL3  and  HOXA10\n",
      "looking for paths in the network with length:  1  for node  GRHL3  and  HOXA10\n",
      "looking for paths in the network with length:  2  for node  GRHL3  and  HOXA10\n",
      "looking for paths in the network with length:  3  for node  GRHL3  and  HOXA10\n",
      "looking for paths in the network with length:  4  for node  GRHL3  and  HOXA10\n",
      "looking for paths in the network with length:  5  for node  GRHL3  and  HOXA10\n",
      "looking for paths in the network with length:  6  for node  GRHL3  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL3  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL3  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL3  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL3  and  HOXA10\n",
      "looking for paths in the network with length:  0  for node  GRHL3  and  ETV4\n",
      "looking for paths in the network with length:  1  for node  GRHL3  and  ETV4\n",
      "looking for paths in the network with length:  2  for node  GRHL3  and  ETV4\n",
      "looking for paths in the network with length:  3  for node  GRHL3  and  ETV4\n",
      "looking for paths in the network with length:  4  for node  GRHL3  and  ETV4\n",
      "looking for paths in the network with length:  5  for node  GRHL3  and  ETV4\n",
      "looking for paths in the network with length:  6  for node  GRHL3  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL3  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL3  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL3  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL3  and  ETV4\n",
      "looking for paths in the network with length:  0  for node  GRHL3  and  ETV5\n",
      "looking for paths in the network with length:  1  for node  GRHL3  and  ETV5\n",
      "looking for paths in the network with length:  2  for node  GRHL3  and  ETV5\n",
      "looking for paths in the network with length:  3  for node  GRHL3  and  ETV5\n",
      "looking for paths in the network with length:  4  for node  GRHL3  and  ETV5\n",
      "looking for paths in the network with length:  5  for node  GRHL3  and  ETV5\n",
      "looking for paths in the network with length:  6  for node  GRHL3  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL3  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL3  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL3  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL3  and  ETV5\n",
      "looking for paths in the network with length:  0  for node  GRHL3  and  POU3F1\n",
      "looking for paths in the network with length:  1  for node  GRHL3  and  POU3F1\n",
      "looking for paths in the network with length:  2  for node  GRHL3  and  POU3F1\n",
      "looking for paths in the network with length:  3  for node  GRHL3  and  POU3F1\n",
      "looking for paths in the network with length:  4  for node  GRHL3  and  POU3F1\n",
      "looking for paths in the network with length:  5  for node  GRHL3  and  POU3F1\n",
      "looking for paths in the network with length:  6  for node  GRHL3  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL3  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL3  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL3  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL3  and  POU3F1\n",
      "looking for paths in the network with length:  0  for node  GRHL3  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  GRHL3  and  CEBPB\n",
      "looking for paths in the network with length:  2  for node  GRHL3  and  CEBPB\n",
      "looking for paths in the network with length:  3  for node  GRHL3  and  CEBPB\n",
      "looking for paths in the network with length:  4  for node  GRHL3  and  CEBPB\n",
      "looking for paths in the network with length:  5  for node  GRHL3  and  CEBPB\n",
      "looking for paths in the network with length:  6  for node  GRHL3  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  GRHL3  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  GRHL3  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  GRHL3  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  GRHL3  and  CEBPB\n",
      "looking for paths in the network with length:  0  for node  EHF  and  KLF5\n",
      "looking for paths in the network with length:  1  for node  EHF  and  KLF5\n",
      "looking for paths in the network with length:  2  for node  EHF  and  KLF5\n",
      "looking for paths in the network with length:  3  for node  EHF  and  KLF5\n",
      "looking for paths in the network with length:  4  for node  EHF  and  KLF5\n",
      "looking for paths in the network with length:  5  for node  EHF  and  KLF5\n",
      "looking for paths in the network with length:  6  for node  EHF  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  EHF  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  EHF  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  EHF  and  KLF5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  EHF  and  KLF5\n",
      "looking for paths in the network with length:  0  for node  EHF  and  HOXA9\n",
      "looking for paths in the network with length:  1  for node  EHF  and  HOXA9\n",
      "looking for paths in the network with length:  2  for node  EHF  and  HOXA9\n",
      "looking for paths in the network with length:  3  for node  EHF  and  HOXA9\n",
      "looking for paths in the network with length:  4  for node  EHF  and  HOXA9\n",
      "looking for paths in the network with length:  5  for node  EHF  and  HOXA9\n",
      "looking for paths in the network with length:  6  for node  EHF  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  EHF  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  EHF  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  EHF  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  EHF  and  HOXA9\n",
      "looking for paths in the network with length:  0  for node  EHF  and  HOXA10\n",
      "looking for paths in the network with length:  1  for node  EHF  and  HOXA10\n",
      "looking for paths in the network with length:  2  for node  EHF  and  HOXA10\n",
      "looking for paths in the network with length:  3  for node  EHF  and  HOXA10\n",
      "looking for paths in the network with length:  4  for node  EHF  and  HOXA10\n",
      "looking for paths in the network with length:  5  for node  EHF  and  HOXA10\n",
      "looking for paths in the network with length:  6  for node  EHF  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  EHF  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  EHF  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  EHF  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  EHF  and  HOXA10\n",
      "looking for paths in the network with length:  0  for node  EHF  and  ETV4\n",
      "looking for paths in the network with length:  1  for node  EHF  and  ETV4\n",
      "looking for paths in the network with length:  2  for node  EHF  and  ETV4\n",
      "looking for paths in the network with length:  3  for node  EHF  and  ETV4\n",
      "looking for paths in the network with length:  4  for node  EHF  and  ETV4\n",
      "looking for paths in the network with length:  5  for node  EHF  and  ETV4\n",
      "looking for paths in the network with length:  6  for node  EHF  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  EHF  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  EHF  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  EHF  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  EHF  and  ETV4\n",
      "looking for paths in the network with length:  0  for node  EHF  and  ETV5\n",
      "looking for paths in the network with length:  1  for node  EHF  and  ETV5\n",
      "looking for paths in the network with length:  2  for node  EHF  and  ETV5\n",
      "looking for paths in the network with length:  3  for node  EHF  and  ETV5\n",
      "looking for paths in the network with length:  4  for node  EHF  and  ETV5\n",
      "looking for paths in the network with length:  5  for node  EHF  and  ETV5\n",
      "looking for paths in the network with length:  6  for node  EHF  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  EHF  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  EHF  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  EHF  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  EHF  and  ETV5\n",
      "looking for paths in the network with length:  0  for node  EHF  and  POU3F1\n",
      "looking for paths in the network with length:  1  for node  EHF  and  POU3F1\n",
      "looking for paths in the network with length:  2  for node  EHF  and  POU3F1\n",
      "looking for paths in the network with length:  3  for node  EHF  and  POU3F1\n",
      "looking for paths in the network with length:  4  for node  EHF  and  POU3F1\n",
      "looking for paths in the network with length:  5  for node  EHF  and  POU3F1\n",
      "looking for paths in the network with length:  6  for node  EHF  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  EHF  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  EHF  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  EHF  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  EHF  and  POU3F1\n",
      "looking for paths in the network with length:  0  for node  EHF  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  EHF  and  CEBPB\n",
      "looking for paths in the network with length:  2  for node  EHF  and  CEBPB\n",
      "looking for paths in the network with length:  3  for node  EHF  and  CEBPB\n",
      "looking for paths in the network with length:  4  for node  EHF  and  CEBPB\n",
      "looking for paths in the network with length:  5  for node  EHF  and  CEBPB\n",
      "looking for paths in the network with length:  6  for node  EHF  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  EHF  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  EHF  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  EHF  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  EHF  and  CEBPB\n",
      "looking for paths in the network with length:  0  for node  KLF5  and  HOXA9\n",
      "looking for paths in the network with length:  1  for node  KLF5  and  HOXA9\n",
      "looking for paths in the network with length:  2  for node  KLF5  and  HOXA9\n",
      "looking for paths in the network with length:  3  for node  KLF5  and  HOXA9\n",
      "looking for paths in the network with length:  4  for node  KLF5  and  HOXA9\n",
      "looking for paths in the network with length:  5  for node  KLF5  and  HOXA9\n",
      "looking for paths in the network with length:  6  for node  KLF5  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  KLF5  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  KLF5  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  KLF5  and  HOXA9\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  KLF5  and  HOXA9\n",
      "looking for paths in the network with length:  0  for node  KLF5  and  HOXA10\n",
      "looking for paths in the network with length:  1  for node  KLF5  and  HOXA10\n",
      "looking for paths in the network with length:  2  for node  KLF5  and  HOXA10\n",
      "looking for paths in the network with length:  3  for node  KLF5  and  HOXA10\n",
      "looking for paths in the network with length:  4  for node  KLF5  and  HOXA10\n",
      "looking for paths in the network with length:  5  for node  KLF5  and  HOXA10\n",
      "looking for paths in the network with length:  6  for node  KLF5  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  KLF5  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  KLF5  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  KLF5  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  KLF5  and  HOXA10\n",
      "looking for paths in the network with length:  0  for node  KLF5  and  ETV4\n",
      "looking for paths in the network with length:  1  for node  KLF5  and  ETV4\n",
      "looking for paths in the network with length:  2  for node  KLF5  and  ETV4\n",
      "looking for paths in the network with length:  3  for node  KLF5  and  ETV4\n",
      "looking for paths in the network with length:  4  for node  KLF5  and  ETV4\n",
      "looking for paths in the network with length:  5  for node  KLF5  and  ETV4\n",
      "looking for paths in the network with length:  6  for node  KLF5  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  KLF5  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  KLF5  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  KLF5  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  KLF5  and  ETV4\n",
      "looking for paths in the network with length:  0  for node  KLF5  and  ETV5\n",
      "looking for paths in the network with length:  1  for node  KLF5  and  ETV5\n",
      "looking for paths in the network with length:  2  for node  KLF5  and  ETV5\n",
      "looking for paths in the network with length:  3  for node  KLF5  and  ETV5\n",
      "looking for paths in the network with length:  4  for node  KLF5  and  ETV5\n",
      "looking for paths in the network with length:  5  for node  KLF5  and  ETV5\n",
      "looking for paths in the network with length:  6  for node  KLF5  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  KLF5  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  KLF5  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  KLF5  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  KLF5  and  ETV5\n",
      "looking for paths in the network with length:  0  for node  KLF5  and  POU3F1\n",
      "looking for paths in the network with length:  1  for node  KLF5  and  POU3F1\n",
      "looking for paths in the network with length:  2  for node  KLF5  and  POU3F1\n",
      "looking for paths in the network with length:  3  for node  KLF5  and  POU3F1\n",
      "looking for paths in the network with length:  4  for node  KLF5  and  POU3F1\n",
      "looking for paths in the network with length:  5  for node  KLF5  and  POU3F1\n",
      "looking for paths in the network with length:  6  for node  KLF5  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  KLF5  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  KLF5  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  KLF5  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  KLF5  and  POU3F1\n",
      "looking for paths in the network with length:  0  for node  KLF5  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  KLF5  and  CEBPB\n",
      "Found a path!\n",
      "[['KLF5', 'CEBPB']]\n",
      "looking for paths in the network with length:  0  for node  HOXA9  and  HOXA10\n",
      "looking for paths in the network with length:  1  for node  HOXA9  and  HOXA10\n",
      "looking for paths in the network with length:  2  for node  HOXA9  and  HOXA10\n",
      "looking for paths in the network with length:  3  for node  HOXA9  and  HOXA10\n",
      "looking for paths in the network with length:  4  for node  HOXA9  and  HOXA10\n",
      "looking for paths in the network with length:  5  for node  HOXA9  and  HOXA10\n",
      "looking for paths in the network with length:  6  for node  HOXA9  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  HOXA9  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  HOXA9  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  HOXA9  and  HOXA10\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  HOXA9  and  HOXA10\n",
      "looking for paths in the network with length:  0  for node  HOXA9  and  ETV4\n",
      "looking for paths in the network with length:  1  for node  HOXA9  and  ETV4\n",
      "looking for paths in the network with length:  2  for node  HOXA9  and  ETV4\n",
      "looking for paths in the network with length:  3  for node  HOXA9  and  ETV4\n",
      "looking for paths in the network with length:  4  for node  HOXA9  and  ETV4\n",
      "looking for paths in the network with length:  5  for node  HOXA9  and  ETV4\n",
      "looking for paths in the network with length:  6  for node  HOXA9  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  HOXA9  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  HOXA9  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  HOXA9  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  HOXA9  and  ETV4\n",
      "looking for paths in the network with length:  0  for node  HOXA9  and  ETV5\n",
      "looking for paths in the network with length:  1  for node  HOXA9  and  ETV5\n",
      "looking for paths in the network with length:  2  for node  HOXA9  and  ETV5\n",
      "looking for paths in the network with length:  3  for node  HOXA9  and  ETV5\n",
      "looking for paths in the network with length:  4  for node  HOXA9  and  ETV5\n",
      "looking for paths in the network with length:  5  for node  HOXA9  and  ETV5\n",
      "looking for paths in the network with length:  6  for node  HOXA9  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  HOXA9  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  HOXA9  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  HOXA9  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  HOXA9  and  ETV5\n",
      "looking for paths in the network with length:  0  for node  HOXA9  and  POU3F1\n",
      "looking for paths in the network with length:  1  for node  HOXA9  and  POU3F1\n",
      "looking for paths in the network with length:  2  for node  HOXA9  and  POU3F1\n",
      "looking for paths in the network with length:  3  for node  HOXA9  and  POU3F1\n",
      "looking for paths in the network with length:  4  for node  HOXA9  and  POU3F1\n",
      "looking for paths in the network with length:  5  for node  HOXA9  and  POU3F1\n",
      "looking for paths in the network with length:  6  for node  HOXA9  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  HOXA9  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  HOXA9  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  HOXA9  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  HOXA9  and  POU3F1\n",
      "looking for paths in the network with length:  0  for node  HOXA9  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  HOXA9  and  CEBPB\n",
      "looking for paths in the network with length:  2  for node  HOXA9  and  CEBPB\n",
      "looking for paths in the network with length:  3  for node  HOXA9  and  CEBPB\n",
      "looking for paths in the network with length:  4  for node  HOXA9  and  CEBPB\n",
      "looking for paths in the network with length:  5  for node  HOXA9  and  CEBPB\n",
      "looking for paths in the network with length:  6  for node  HOXA9  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  HOXA9  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  HOXA9  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  HOXA9  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  HOXA9  and  CEBPB\n",
      "[['HOXA9', 'PIM1', 'FLT3', 'CEBPB']]\n",
      "P31269 P11309\n",
      "P11309 P36888\n",
      "P36888 P17676\n",
      "P55317 P0DMV8\n",
      "P55317 P10275\n",
      "P55317 O00712\n",
      "P17676 Q13887\n",
      "P04150 Q13887\n",
      "Q15910 P31269\n",
      "P31269 P11309\n",
      "Q15910 P31260\n",
      "O00712 P41161\n",
      "P04150 P17676\n",
      "P36888 P17676\n",
      "P0DMV8 P04150\n",
      "P04150 P10275\n",
      "P10275 P04150\n",
      "Q15910 P10275\n",
      "O00712 Q15910\n",
      "P11309 P36888\n",
      "P36888 P11309\n",
      "looking for paths in the network with length:  0  for node  HOXA10  and  ETV4\n",
      "looking for paths in the network with length:  1  for node  HOXA10  and  ETV4\n",
      "looking for paths in the network with length:  2  for node  HOXA10  and  ETV4\n",
      "looking for paths in the network with length:  3  for node  HOXA10  and  ETV4\n",
      "looking for paths in the network with length:  4  for node  HOXA10  and  ETV4\n",
      "looking for paths in the network with length:  5  for node  HOXA10  and  ETV4\n",
      "looking for paths in the network with length:  6  for node  HOXA10  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  HOXA10  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  HOXA10  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  HOXA10  and  ETV4\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  HOXA10  and  ETV4\n",
      "looking for paths in the network with length:  0  for node  HOXA10  and  ETV5\n",
      "looking for paths in the network with length:  1  for node  HOXA10  and  ETV5\n",
      "looking for paths in the network with length:  2  for node  HOXA10  and  ETV5\n",
      "looking for paths in the network with length:  3  for node  HOXA10  and  ETV5\n",
      "looking for paths in the network with length:  4  for node  HOXA10  and  ETV5\n",
      "looking for paths in the network with length:  5  for node  HOXA10  and  ETV5\n",
      "looking for paths in the network with length:  6  for node  HOXA10  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  HOXA10  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  HOXA10  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  HOXA10  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  HOXA10  and  ETV5\n",
      "looking for paths in the network with length:  0  for node  HOXA10  and  POU3F1\n",
      "looking for paths in the network with length:  1  for node  HOXA10  and  POU3F1\n",
      "looking for paths in the network with length:  2  for node  HOXA10  and  POU3F1\n",
      "looking for paths in the network with length:  3  for node  HOXA10  and  POU3F1\n",
      "looking for paths in the network with length:  4  for node  HOXA10  and  POU3F1\n",
      "looking for paths in the network with length:  5  for node  HOXA10  and  POU3F1\n",
      "looking for paths in the network with length:  6  for node  HOXA10  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  HOXA10  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  HOXA10  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  HOXA10  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  HOXA10  and  POU3F1\n",
      "looking for paths in the network with length:  0  for node  HOXA10  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  HOXA10  and  CEBPB\n",
      "looking for paths in the network with length:  2  for node  HOXA10  and  CEBPB\n",
      "looking for paths in the network with length:  3  for node  HOXA10  and  CEBPB\n",
      "looking for paths in the network with length:  4  for node  HOXA10  and  CEBPB\n",
      "looking for paths in the network with length:  5  for node  HOXA10  and  CEBPB\n",
      "looking for paths in the network with length:  6  for node  HOXA10  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  HOXA10  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  HOXA10  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  HOXA10  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  HOXA10  and  CEBPB\n",
      "looking for paths in the network with length:  0  for node  ETV4  and  ETV5\n",
      "looking for paths in the network with length:  1  for node  ETV4  and  ETV5\n",
      "looking for paths in the network with length:  2  for node  ETV4  and  ETV5\n",
      "looking for paths in the network with length:  3  for node  ETV4  and  ETV5\n",
      "looking for paths in the network with length:  4  for node  ETV4  and  ETV5\n",
      "looking for paths in the network with length:  5  for node  ETV4  and  ETV5\n",
      "looking for paths in the network with length:  6  for node  ETV4  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  ETV4  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  ETV4  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  ETV4  and  ETV5\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  ETV4  and  ETV5\n",
      "looking for paths in the network with length:  0  for node  ETV4  and  POU3F1\n",
      "looking for paths in the network with length:  1  for node  ETV4  and  POU3F1\n",
      "looking for paths in the network with length:  2  for node  ETV4  and  POU3F1\n",
      "looking for paths in the network with length:  3  for node  ETV4  and  POU3F1\n",
      "looking for paths in the network with length:  4  for node  ETV4  and  POU3F1\n",
      "looking for paths in the network with length:  5  for node  ETV4  and  POU3F1\n",
      "looking for paths in the network with length:  6  for node  ETV4  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  ETV4  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  ETV4  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  ETV4  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  ETV4  and  POU3F1\n",
      "looking for paths in the network with length:  0  for node  ETV4  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  ETV4  and  CEBPB\n",
      "looking for paths in the network with length:  2  for node  ETV4  and  CEBPB\n",
      "looking for paths in the network with length:  3  for node  ETV4  and  CEBPB\n",
      "looking for paths in the network with length:  4  for node  ETV4  and  CEBPB\n",
      "looking for paths in the network with length:  5  for node  ETV4  and  CEBPB\n",
      "looking for paths in the network with length:  6  for node  ETV4  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  ETV4  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  ETV4  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  ETV4  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  ETV4  and  CEBPB\n",
      "looking for paths in the network with length:  0  for node  ETV5  and  POU3F1\n",
      "looking for paths in the network with length:  1  for node  ETV5  and  POU3F1\n",
      "looking for paths in the network with length:  2  for node  ETV5  and  POU3F1\n",
      "looking for paths in the network with length:  3  for node  ETV5  and  POU3F1\n",
      "looking for paths in the network with length:  4  for node  ETV5  and  POU3F1\n",
      "looking for paths in the network with length:  5  for node  ETV5  and  POU3F1\n",
      "looking for paths in the network with length:  6  for node  ETV5  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  ETV5  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  ETV5  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  ETV5  and  POU3F1\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  ETV5  and  POU3F1\n",
      "looking for paths in the network with length:  0  for node  ETV5  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  ETV5  and  CEBPB\n",
      "looking for paths in the network with length:  2  for node  ETV5  and  CEBPB\n",
      "looking for paths in the network with length:  3  for node  ETV5  and  CEBPB\n",
      "looking for paths in the network with length:  4  for node  ETV5  and  CEBPB\n",
      "looking for paths in the network with length:  5  for node  ETV5  and  CEBPB\n",
      "looking for paths in the network with length:  6  for node  ETV5  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  ETV5  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  ETV5  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  ETV5  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  ETV5  and  CEBPB\n",
      "looking for paths in the network with length:  0  for node  POU3F1  and  CEBPB\n",
      "looking for paths in the network with length:  1  for node  POU3F1  and  CEBPB\n",
      "looking for paths in the network with length:  2  for node  POU3F1  and  CEBPB\n",
      "looking for paths in the network with length:  3  for node  POU3F1  and  CEBPB\n",
      "looking for paths in the network with length:  4  for node  POU3F1  and  CEBPB\n",
      "looking for paths in the network with length:  5  for node  POU3F1  and  CEBPB\n",
      "looking for paths in the network with length:  6  for node  POU3F1  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  0  for node  POU3F1  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  1  for node  POU3F1  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  2  for node  POU3F1  and  CEBPB\n",
      "i_search =  3\n",
      "Looking for paths with length:  3  for node  POU3F1  and  CEBPB\n",
      "CPU times: user 8.91 s, sys: 36 ms, total: 8.95 s\n",
      "Wall time: 8.91 s\n"
     ]
    }
   ],
   "source": [
    "%%time\n",
    "new_net1.complete_connection(mode=\"ALL\", maxlen=6, k_mean=\"tight\", only_signed=True,\n",
    "                             connect_node_when_first_introduced=True) # here, consensus_only is missing, in this way it is automatically False"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "64b445e7-2e45-40ee-9ee9-268965b4d55b",
   "metadata": {},
   "source": [
    "## SIGNOR uses has different identifiers for complexes, protein family, phenotype, etc.\n",
    "## It is possible that the network contains nodes names like \"Signor_pf32\" or something like this... This is not yet translated, but if you are interested in what those nodes consist of, you can use download their vocabulary for the entities: https://signor.uniroma2.it/downloads.php\n",
    "## Maybe we are going to integrate this too... "
   ]
  },
  {
   "cell_type": "markdown",
   "id": "6b54c437",
   "metadata": {},
   "source": [
    "### Finally we can export the network in bnet format with some basic logical equations or in sif format for Cytoscape visualization"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "id": "547e4090",
   "metadata": {},
   "outputs": [],
   "source": [
    "from omniflow_project._outputs.exports import Exports"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 14,
   "id": "6fd81835",
   "metadata": {},
   "outputs": [],
   "source": [
    "export = Exports(new_net1)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 15,
   "id": "a408094f",
   "metadata": {},
   "outputs": [],
   "source": [
    "export.export_bnet()\n",
    "export.export_sif()"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "8ed135d3-9f71-4cec-9381-96c63fba766e",
   "metadata": {},
   "source": [
    "### Gene Ontology\n",
    "## A new feature of Omniflow. Now, the user can connect the nodes of the Network with markers of a certain phenotype, from Gene Ontology. "
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 10,
   "id": "fa499a38-c22a-4a0e-b1d4-3ffb10e4a370",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Start requesting genes from Gene Ontology\n",
      "Fetching from:  https://golr-aux.geneontology.io/solr/select?defType=edismax&qt=standard&indent=on&wt=csv&rows=100000&start=0&fl=bioentity_label&facet=true&facet.mincount=1&facet.sort=count&json.nl=arrarr&facet.limit=25&hl=true&hl.simple.pre=%3Cem%20class=%22hilite%22%3E&hl.snippets=1000&csv.encapsulator=&csv.separator=%09&csv.header=false&csv.mv.separator=%7C&fq=document_category:%22annotation%22&fq=isa_partof_closure:%22GO:0097194%22&fq=taxon_subset_closure_label:%22Homo%20sapiens%22&fq=type:%22protein%22&fq=annotation_class_label:%22execution%20phase%20of%20apoptosis%22&facet.field=aspect&facet.field=taxon_subset_closure_label&facet.field=type&facet.field=evidence_subset_closure_label&facet.field=regulates_closure_label&facet.field=isa_partof_closure_label&facet.field=annotation_class_label&facet.field=qualifier&facet.field=annotation_extension_class_closure_label&facet.field=assigned_by&facet.field=panther_family_label&q=*:*\n",
      "Done\n",
      "Starting connecting network's nodes to:  ['AIFM3', 'CASP7', 'MADD', 'CASP3', 'CASP8', 'CASP5', 'BNIP1', 'CIDEC', 'COLEC11', 'HTRA2', 'CASP12', 'TAOK1', 'BBC3', 'CFLAR', 'CIDEB', 'NFKBIZ', 'CASP6', 'STK24', 'CASP4', 'AKT1', 'NPR2', 'CASP2', 'CECR2']\n",
      "Q01094 Q96PG8\n",
      "P28482 Q14790\n",
      "P31749 O15519\n",
      "P31749 O43464\n",
      "P06493 Q14790\n",
      "P62136 P42575\n",
      "SIGNOR-PF54 P42575\n",
      "Q13315 Q7L7X3\n",
      "P68400 P42575\n",
      "Q16539 O15519\n",
      "Q16539 P42574\n",
      "Q16539 Q14790\n",
      "P27361 Q14790\n",
      "SIGNOR-PF1 Q14790\n",
      "CPU times: user 1.17 s, sys: 1.02 ms, total: 1.17 s\n",
      "Wall time: 1.98 s\n"
     ]
    }
   ],
   "source": [
    "%%time\n",
    "new_net1.connect_genes_to_phenotype(id_accession=\"GO:0097194\", phenotype=\"execution phase of apoptosis\", only_signed=True, compress=True, maxlen=1)"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "48bf53a4",
   "metadata": {},
   "source": [
    "# TO DO:\n",
    "\n",
    "- method to print sif file with reference for each interaction (easy task)\n",
    "- more utility functions (???)\n",
    "- create function to look for common upstream for group of nodes"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "33300268-bcf6-442b-97be-c7718922a939",
   "metadata": {},
   "outputs": [],
   "source": []
  }
 ],
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