output_defaultDatasetForGeneset.json

{
  "TCGA Lung Adenocarcinoma (LUAD)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_LUAD_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.LUAD.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Lung_Adenocarcinoma__LUAD_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/LUAD_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.LUAD.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Lung_Adenocarcinoma__LUAD_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/LUAD_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "Regulon activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "regulon_activity_matrix_tcga_luad.tsv"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/LUAD_merge_merged_reals.txt"
    }
  },
  "TCGA Pancreatic Cancer (PAAD)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_PAAD_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.PAAD.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Pancreatic_Cancer__PAAD_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/PAAD_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.PAAD.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Pancreatic_Cancer__PAAD_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/PAAD_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/PAAD_merge_merged_reals.txt"
    }
  },
  "TCGA Liver Cancer (LIHC)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_LIHC_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.LIHC.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Liver_Cancer__LIHC_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/LIHC_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.LIHC.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Liver_Cancer__LIHC_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/LIHC_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/LIHC_merge_merged_reals.txt"
    }
  },
  "TCGA Stomach Cancer (STAD)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_STAD_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.STAD.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Stomach_Cancer__STAD_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/STAD_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.STAD.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Stomach_Cancer__STAD_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/STAD_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/STAD_merge_merged_reals.txt"
    }
  },
  "TCGA Colon Cancer (COAD)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_COAD_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.COAD.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Colon_Cancer__COAD_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/COAD_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.COAD.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Colon_Cancer__COAD_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/COAD_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/COAD_merge_merged_reals.txt"
    }
  },
  "TCGA Thymoma (THYM)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_THYM_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.THYM.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Thymoma__THYM_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/THYM_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.THYM.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Thymoma__THYM_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/THYM_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/THYM_merge_merged_reals.txt"
    }
  },
  "TCGA Kidney Clear Cell Carcinoma (KIRC)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_KIRC_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.KIRC.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Kidney_Clear_Cell_Carcinoma__KIRC_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/KIRC_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.KIRC.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Kidney_Clear_Cell_Carcinoma__KIRC_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/KIRC_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/KIRC_merge_merged_reals.txt"
    }
  },
  "TCGA Kidney Papillary Cell Carcinoma (KIRP)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_KIRP_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.KIRP.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Kidney_Papillary_Cell_Carcinoma__KIRP_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/KIRP_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.KIRP.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Kidney_Papillary_Cell_Carcinoma__KIRP_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/KIRP_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/KIRP_merge_merged_reals.txt"
    }
  },
  "TCGA Adrenocortical Cancer (ACC)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_ACC_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.ACC.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Adrenocortical_Cancer__ACC_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/ACC_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.ACC.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Adrenocortical_Cancer__ACC_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/ACC_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/ACC_merge_merged_reals.txt"
    }
  },
  "TCGA Ocular melanomas (UVM)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_UVM_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.UVM.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Ocular_melanomas__UVM_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/UVM_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.UVM.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Ocular_melanomas__UVM_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/UVM_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
    "PARADIGM": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "merge_merged_reals/UVM_merge_merged_reals.txt"
    }
  },
  "TCGA Lung Squamous Cell Carcinoma (LUSC)": {
    "viewInPathway": true,
    "genome background": {
      "mutation": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "mutation_sampleEvent"
      },
      "copy number": {
        "feature_event_K": "event_K",
        "feature_total_pop_N": "total_pop_N",
        "host": "https://xenago.xenahubs.net",
        "dataset": "cnv_sampleEvent"
      }
    },
    "gene expression pathway activity": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "pathway_act/TCGA_LUSC_BPA_Z.tsv"
    },
    "copy number for pathway view": {
      "host": "https://tcga.xenahubs.net",
      "amplificationThreshold": 2,
      "dataset": "TCGA.LUSC.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes",
      "deletionThreshold": -2
    },
    "gene expression raw": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Lung_Squamous_Cell_Carcinoma__LUSC_.z.tpm"
    },
    "simple somatic mutation": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "mc3/LUSC_mc3.txt"
    },
    "copy number": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "TCGA.LUSC.sampleMap/SNP6_nocnv_genomicSegment"
    },
    "gene expression": {
      "host": "https://xenago.xenahubs.net",
      "dataset": "tpm_z/TCGA_Lung_Squamous_Cell_Carcinoma__LUSC_.z.tpm"
    },
    "PARADIGM pathway activity": {
      "host": "https://tcga.xenahubs.net",
      "dataset": "PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z/LUSC_PanCan33_ssGSEA_1387GeneSets_NonZero_sample_level_Z.txt"
    },
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