diff --git a/metadata/datasets.schema.yaml b/metadata/datasets.schema.yaml index 21fdc2bf..42c82356 100644 --- a/metadata/datasets.schema.yaml +++ b/metadata/datasets.schema.yaml @@ -103,6 +103,66 @@ mapping: type: str required: false unique: false + "paint": + type: map + required: false + mapping: + "id": + type: str + required: true + unique: true + "label": + type: str + required: true + unique: true + "description": + type: str + required: true + unique: true + "url": + type: str + required: true + unique: true + "type": + type: str + required: true + unique: false + "dataset": + type: str + required: true + unique: false + "submitter": + type: str + required: true + unique: false + "compression": + type: str + required: false + unique: false + "source": + type: str + required: false + unique: false + "species_code": + type: str + required: false + unique: false + "merges_into": + type: str + required: false + unique: false + "entity_type": + type: str + required: false + unique: false + "aggregates": + type: str + required: false + unique: false + "status": + type: str + required: false + unique: false "taxa": type: seq required: false diff --git a/metadata/datasets/aspgd.yaml b/metadata/datasets/aspgd.yaml index 750f7f0b..bfb25687 100644 --- a/metadata/datasets/aspgd.yaml +++ b/metadata/datasets/aspgd.yaml @@ -7,40 +7,39 @@ project_url: "http://aspergillusgenomes.org/" funding_source: "NIAID US NIH" email_report: "aspergillus-curator@lists.stanford.edu" datasets: - - - id: aspgd.gaf - label: "aspgd gaf file" - description: "gaf file for aspgd from Aspergillus Genome Database" - url: http://geneontology.org/gene-associations/gene_association.aspgd.gz - type: gaf - dataset: aspgd - submitter: aspgd - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.aspgd.gz - entity_type: - status: active - species_code: Aspergillus - taxa: - - NCBITaxon:5052 - - NCBITaxon:1033177 - - NCBITaxon:1073089 - - NCBITaxon:1137211 - - NCBITaxon:1160497 - - NCBITaxon:331117 - - NCBITaxon:332952 - - NCBITaxon:341663 - - NCBITaxon:344612 - - NCBITaxon:41063 - - NCBITaxon:451804 - - NCBITaxon:46472 - - NCBITaxon:5061 - - NCBITaxon:5062 - - NCBITaxon:602072 - - NCBITaxon:690307 - - NCBITaxon:746128 - - NCBITaxon:75750 - - NCBITaxon:767769 - - NCBITaxon:767770 - - NCBITaxon:162425 - - NCBITaxon:5085 - + - + id: aspgd.gaf + label: "aspgd gaf file" + description: "gaf file for aspgd from Aspergillus Genome Database" + url: http://geneontology.org/gene-associations/gene_association.aspgd.gz + type: gaf + dataset: aspgd + submitter: aspgd + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.aspgd.gz + entity_type: + status: active + species_code: Aspergillus + taxa: + - NCBITaxon:5052 + - NCBITaxon:1033177 + - NCBITaxon:1073089 + - NCBITaxon:1137211 + - NCBITaxon:1160497 + - NCBITaxon:331117 + - NCBITaxon:332952 + - NCBITaxon:341663 + - NCBITaxon:344612 + - NCBITaxon:41063 + - NCBITaxon:451804 + - NCBITaxon:46472 + - NCBITaxon:5061 + - NCBITaxon:5062 + - NCBITaxon:602072 + - NCBITaxon:690307 + - NCBITaxon:746128 + - NCBITaxon:75750 + - NCBITaxon:767769 + - NCBITaxon:767770 + - NCBITaxon:162425 + - NCBITaxon:5085 diff --git a/metadata/datasets/cgd.yaml b/metadata/datasets/cgd.yaml index 940d115c..ea602e2e 100644 --- a/metadata/datasets/cgd.yaml +++ b/metadata/datasets/cgd.yaml @@ -7,29 +7,40 @@ project_url: "http://www.candidagenome.org/" funding_source: "NIDCR at US NIH, grant number 1-R01-DE015873-01" email_report: "candida-curator@lists.stanford.edu" datasets: - - - id: cgd.gaf - label: "cgd gaf file" - description: "gaf file for cgd from Candida Genome Database" - url: http://geneontology.org/gene-associations/gene_association.cgd.gz - type: gaf - dataset: cgd - submitter: cgd - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.cgd.gz - entity_type: - status: active - species_code: - taxa: - - NCBITaxon:5476 - - NCBITaxon:5478 - - NCBITaxon:5480 - - NCBITaxon:1136231 - - NCBITaxon:284592 - - NCBITaxon:294746 - - NCBITaxon:294747 - - NCBITaxon:294748 - - NCBITaxon:306902 - - NCBITaxon:379508 - - NCBITaxon:42374 - + - + id: cgd.gaf + label: "cgd gaf file" + description: "gaf file for cgd from Candida Genome Database" + url: http://geneontology.org/gene-associations/gene_association.cgd.gz + type: gaf + dataset: cgd + submitter: cgd + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.cgd.gz + entity_type: + status: active + paint: + id: paint_cgd.gaf + label: "paint_cgd gaf file" + description: "gaf file for paint_cgd from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_cgd.gaf.gz + type: gaf + dataset: paint_cgd + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_cgd.gaf.gz + entity_type: + status: active + species_code: + taxa: + - NCBITaxon:5476 + - NCBITaxon:5478 + - NCBITaxon:5480 + - NCBITaxon:1136231 + - NCBITaxon:284592 + - NCBITaxon:294746 + - NCBITaxon:294747 + - NCBITaxon:294748 + - NCBITaxon:306902 + - NCBITaxon:379508 + - NCBITaxon:42374 diff --git a/metadata/datasets/dictybase.yaml b/metadata/datasets/dictybase.yaml index 3575affa..b136b729 100644 --- a/metadata/datasets/dictybase.yaml +++ b/metadata/datasets/dictybase.yaml @@ -7,22 +7,33 @@ project_url: "http://dictybase.org" funding_source: "NIH (NIGMS and NHGRI)" email_report: "dictybase@northwestern.edu" datasets: - - - id: dictybase.gaf - label: "dictybase gaf file" - description: "gaf file for dictybase from dictyBase" - url: http://geneontology.org/gene-associations/gene_association.dictyBase.gz - type: gaf - dataset: dictybase - submitter: dictybase - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.dictyBase.gz - entity_type: - status: active - species_code: Ddis - taxa: - - NCBITaxon:352472 - - NCBITaxon:366501 - - NCBITaxon:44689 - - NCBITaxon:5782 - + - + id: dictybase.gaf + label: "dictybase gaf file" + description: "gaf file for dictybase from dictyBase" + url: http://geneontology.org/gene-associations/gene_association.dictyBase.gz + type: gaf + dataset: dictybase + submitter: dictybase + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.dictyBase.gz + entity_type: + status: active + paint: + id: paint_dictybase.gaf + label: "paint_dictybase gaf file" + description: "gaf file for paint_dictybase from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_dictyBase.gaf.gz + type: gaf + dataset: paint_dictybase + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_dictyBase.gaf.gz + entity_type: + status: active + species_code: Ddis + taxa: + - NCBITaxon:352472 + - NCBITaxon:366501 + - NCBITaxon:44689 + - NCBITaxon:5782 diff --git a/metadata/datasets/ecocyc.yaml b/metadata/datasets/ecocyc.yaml index 41675772..68a53b5d 100644 --- a/metadata/datasets/ecocyc.yaml +++ b/metadata/datasets/ecocyc.yaml @@ -7,19 +7,30 @@ project_url: "http://ecoliwiki.net" funding_source: "GM077678, NIGMS U24GM088849" email_report: "ecoliwiki@gmail.com" datasets: - - - id: ecocyc.gaf - label: "ecocyc gaf file" - description: "gaf file for ecocyc from Encyclopedia of E. coli metabolism" - url: http://geneontology.org/gene-associations/gene_association.ecocyc.gz - type: gaf - dataset: ecocyc - submitter: ecocyc - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.ecocyc.gz - entity_type: - status: active - species_code: - taxa: - - NCBITaxon:83333 - + - + id: ecocyc.gaf + label: "ecocyc gaf file" + description: "gaf file for ecocyc from Encyclopedia of E. coli metabolism" + url: http://geneontology.org/gene-associations/gene_association.ecocyc.gz + type: gaf + dataset: ecocyc + submitter: ecocyc + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.ecocyc.gz + entity_type: + status: active + paint: + id: paint_ecocyc.gaf + label: "paint_ecocyc gaf file" + description: "gaf file for paint_ecocyc from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_ecocyc.gaf.gz + type: gaf + dataset: paint_ecocyc + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_ecocyc.gaf.gz + entity_type: + status: active + species_code: + taxa: + - NCBITaxon:83333 diff --git a/metadata/datasets/fb.yaml b/metadata/datasets/fb.yaml index 837805ad..bf38e930 100644 --- a/metadata/datasets/fb.yaml +++ b/metadata/datasets/fb.yaml @@ -7,19 +7,30 @@ project_url: "http://flybase.org" funding_source: "MRC at UK MRC, grant number G1000968 " email_report: "gocur@morgan.harvard.edu" datasets: - - - id: fb.gaf - label: "fb gaf file" - description: "gaf file for fb from FlyBase" - url: http://geneontology.org/gene-associations/gene_association.fb.gz - type: gaf - dataset: fb - submitter: fb - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.fb.gz - entity_type: - status: active - species_code: Dmel - taxa: - - NCBITaxon:7227 - + - + id: fb.gaf + label: "fb gaf file" + description: "gaf file for fb from FlyBase" + url: http://geneontology.org/gene-associations/gene_association.fb.gz + type: gaf + dataset: fb + submitter: fb + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.fb.gz + entity_type: + status: active + paint: + id: paint_fb.gaf + label: "paint_fb gaf file" + description: "gaf file for paint_fb from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_fb.gaf.gz + type: gaf + dataset: paint_fb + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_fb.gaf.gz + entity_type: + status: active + species_code: Dmel + taxa: + - NCBITaxon:7227 diff --git a/metadata/datasets/goa.yaml b/metadata/datasets/goa.yaml index c76376b7..5fb06d24 100644 --- a/metadata/datasets/goa.yaml +++ b/metadata/datasets/goa.yaml @@ -7,1353 +7,1376 @@ project_url: "http://www.ebi.ac.uk/GOA" funding_source: "unspecified" email_report: "goa@ebi.ac.uk" datasets: - - - id: goa_chicken.gpad - label: "goa_chicken gpad file" - description: "gpad file for goa_chicken from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_chicken.gpa.gz - type: gpad - dataset: goa_chicken - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken.gpa.gz - entity_type: protein - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken.gpi - label: "goa_chicken gpi file" - description: "gpi file for goa_chicken from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_chicken.gpi.gz - type: gpi - dataset: goa_chicken - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken.gpi.gz - entity_type: protein - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken_complex.gpad - label: "goa_chicken_complex gpad file" - description: "gpad file for goa_chicken_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_chicken_complex.gpa.gz - type: gpad - dataset: goa_chicken_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_complex.gpa.gz - entity_type: complex - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken_complex.gpi - label: "goa_chicken_complex gpi file" - description: "gpi file for goa_chicken_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_chicken_complex.gpi.gz - type: gpi - dataset: goa_chicken_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_complex.gpi.gz - entity_type: complex - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken_isoform.gpad - label: "goa_chicken_isoform gpad file" - description: "gpad file for goa_chicken_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_chicken_isoform.gpa.gz - type: gpad - dataset: goa_chicken_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_isoform.gpa.gz - entity_type: isoform - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken_isoform.gpi - label: "goa_chicken_isoform gpi file" - description: "gpi file for goa_chicken_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_chicken_isoform.gpi.gz - type: gpi - dataset: goa_chicken_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_isoform.gpi.gz - entity_type: isoform - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken_rna.gpad - label: "goa_chicken_rna gpad file" - description: "gpad file for goa_chicken_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_chicken_rna.gpa.gz - type: gpad - dataset: goa_chicken_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_rna.gpa.gz - entity_type: rna - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken_rna.gpi - label: "goa_chicken_rna gpi file" - description: "gpi file for goa_chicken_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_chicken_rna.gpi.gz - type: gpi - dataset: goa_chicken_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_rna.gpi.gz - entity_type: rna - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_cow.gpad - label: "goa_cow gpad file" - description: "gpad file for goa_cow from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_cow.gpa.gz - type: gpad - dataset: goa_cow - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow.gpa.gz - entity_type: protein - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow.gpi - label: "goa_cow gpi file" - description: "gpi file for goa_cow from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_cow.gpi.gz - type: gpi - dataset: goa_cow - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow.gpi.gz - entity_type: protein - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow_complex.gpad - label: "goa_cow_complex gpad file" - description: "gpad file for goa_cow_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_cow_complex.gpa.gz - type: gpad - dataset: goa_cow_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_complex.gpa.gz - entity_type: complex - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow_complex.gpi - label: "goa_cow_complex gpi file" - description: "gpi file for goa_cow_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_cow_complex.gpi.gz - type: gpi - dataset: goa_cow_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_complex.gpi.gz - entity_type: complex - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow_isoform.gpad - label: "goa_cow_isoform gpad file" - description: "gpad file for goa_cow_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_cow_isoform.gpa.gz - type: gpad - dataset: goa_cow_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_isoform.gpa.gz - entity_type: isoform - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow_isoform.gpi - label: "goa_cow_isoform gpi file" - description: "gpi file for goa_cow_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_cow_isoform.gpi.gz - type: gpi - dataset: goa_cow_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_isoform.gpi.gz - entity_type: isoform - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow_rna.gpad - label: "goa_cow_rna gpad file" - description: "gpad file for goa_cow_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_cow_rna.gpa.gz - type: gpad - dataset: goa_cow_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_rna.gpa.gz - entity_type: rna - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow_rna.gpi - label: "goa_cow_rna gpi file" - description: "gpi file for goa_cow_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_cow_rna.gpi.gz - type: gpi - dataset: goa_cow_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_rna.gpi.gz - entity_type: rna - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_dog.gpad - label: "goa_dog gpad file" - description: "gpad file for goa_dog from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_dog.gpa.gz - type: gpad - dataset: goa_dog - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog.gpa.gz - entity_type: protein - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog.gpi - label: "goa_dog gpi file" - description: "gpi file for goa_dog from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_dog.gpi.gz - type: gpi - dataset: goa_dog - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog.gpi.gz - entity_type: protein - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog_complex.gpad - label: "goa_dog_complex gpad file" - description: "gpad file for goa_dog_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_dog_complex.gpa.gz - type: gpad - dataset: goa_dog_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_complex.gpa.gz - entity_type: complex - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog_complex.gpi - label: "goa_dog_complex gpi file" - description: "gpi file for goa_dog_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_dog_complex.gpi.gz - type: gpi - dataset: goa_dog_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_complex.gpi.gz - entity_type: complex - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog_isoform.gpad - label: "goa_dog_isoform gpad file" - description: "gpad file for goa_dog_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_dog_isoform.gpa.gz - type: gpad - dataset: goa_dog_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_isoform.gpa.gz - entity_type: isoform - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog_isoform.gpi - label: "goa_dog_isoform gpi file" - description: "gpi file for goa_dog_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_dog_isoform.gpi.gz - type: gpi - dataset: goa_dog_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_isoform.gpi.gz - entity_type: isoform - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog_rna.gpad - label: "goa_dog_rna gpad file" - description: "gpad file for goa_dog_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_dog_rna.gpa.gz - type: gpad - dataset: goa_dog_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_rna.gpa.gz - entity_type: rna - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog_rna.gpi - label: "goa_dog_rna gpi file" - description: "gpi file for goa_dog_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_dog_rna.gpi.gz - type: gpi - dataset: goa_dog_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_rna.gpi.gz - entity_type: rna - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_human.gpad - label: "goa_human gpad file" - description: "gpad file for goa_human from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_human.gpa.gz - type: gpad - dataset: goa_human - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human.gpa.gz - entity_type: protein - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human.gpi - label: "goa_human gpi file" - description: "gpi file for goa_human from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_human.gpi.gz - type: gpi - dataset: goa_human - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human.gpi.gz - entity_type: protein - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human_complex.gpad - label: "goa_human_complex gpad file" - description: "gpad file for goa_human_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_human_complex.gpa.gz - type: gpad - dataset: goa_human_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_complex.gpa.gz - entity_type: complex - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human_complex.gpi - label: "goa_human_complex gpi file" - description: "gpi file for goa_human_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_human_complex.gpi.gz - type: gpi - dataset: goa_human_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_complex.gpi.gz - entity_type: complex - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human_isoform.gpad - label: "goa_human_isoform gpad file" - description: "gpad file for goa_human_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_human_isoform.gpa.gz - type: gpad - dataset: goa_human_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_isoform.gpa.gz - entity_type: isoform - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human_isoform.gpi - label: "goa_human_isoform gpi file" - description: "gpi file for goa_human_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_human_isoform.gpi.gz - type: gpi - dataset: goa_human_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_isoform.gpi.gz - entity_type: isoform - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human_rna.gpad - label: "goa_human_rna gpad file" - description: "gpad file for goa_human_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_human_rna.gpa.gz - type: gpad - dataset: goa_human_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_rna.gpa.gz - entity_type: rna - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human_rna.gpi - label: "goa_human_rna gpi file" - description: "gpi file for goa_human_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_human_rna.gpi.gz - type: gpi - dataset: goa_human_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_rna.gpi.gz - entity_type: rna - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_pig.gpad - label: "goa_pig gpad file" - description: "gpad file for goa_pig from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_pig.gpa.gz - type: gpad - dataset: goa_pig - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig.gpa.gz - entity_type: protein - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig.gpi - label: "goa_pig gpi file" - description: "gpi file for goa_pig from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_pig.gpi.gz - type: gpi - dataset: goa_pig - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig.gpi.gz - entity_type: protein - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig_complex.gpad - label: "goa_pig_complex gpad file" - description: "gpad file for goa_pig_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_pig_complex.gpa.gz - type: gpad - dataset: goa_pig_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_complex.gpa.gz - entity_type: complex - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig_complex.gpi - label: "goa_pig_complex gpi file" - description: "gpi file for goa_pig_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_pig_complex.gpi.gz - type: gpi - dataset: goa_pig_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_complex.gpi.gz - entity_type: complex - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig_isoform.gpad - label: "goa_pig_isoform gpad file" - description: "gpad file for goa_pig_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_pig_isoform.gpa.gz - type: gpad - dataset: goa_pig_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_isoform.gpa.gz - entity_type: isoform - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig_isoform.gpi - label: "goa_pig_isoform gpi file" - description: "gpi file for goa_pig_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_pig_isoform.gpi.gz - type: gpi - dataset: goa_pig_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_isoform.gpi.gz - entity_type: isoform - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig_rna.gpad - label: "goa_pig_rna gpad file" - description: "gpad file for goa_pig_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_pig_rna.gpa.gz - type: gpad - dataset: goa_pig_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_rna.gpa.gz - entity_type: rna - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig_rna.gpi - label: "goa_pig_rna gpi file" - description: "gpi file for goa_pig_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gpad-gpi/release/goa_pig_rna.gpi.gz - type: gpi - dataset: goa_pig_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_rna.gpi.gz - entity_type: rna - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_chicken.gaf - label: "goa_chicken gaf file" - description: "gaf file for goa_chicken from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_chicken.gaf.gz - type: gaf - dataset: goa_chicken - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken.gaf.gz - entity_type: protein - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken_complex.gaf - label: "goa_chicken_complex gaf file" - description: "gaf file for goa_chicken_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_chicken_complex.gaf.gz - type: gaf - dataset: goa_chicken_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_complex.gaf.gz - entity_type: complex - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken_isoform.gaf - label: "goa_chicken_isoform gaf file" - description: "gaf file for goa_chicken_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_chicken_isoform.gaf.gz - type: gaf - dataset: goa_chicken_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_isoform.gaf.gz - entity_type: isoform - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_chicken_rna.gaf - label: "goa_chicken_rna gaf file" - description: "gaf file for goa_chicken_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_chicken_rna.gaf.gz - type: gaf - dataset: goa_chicken_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_rna.gaf.gz - entity_type: rna - status: active - species_code: Ggal - taxa: - - NCBITaxon:208524 - - NCBITaxon:208525 - - NCBITaxon:208526 - - NCBITaxon:400035 - - NCBITaxon:9031 - - - - id: goa_cow.gaf - label: "goa_cow gaf file" - description: "gaf file for goa_cow from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_cow.gaf.gz - type: gaf - dataset: goa_cow - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow.gaf.gz - entity_type: protein - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow_complex.gaf - label: "goa_cow_complex gaf file" - description: "gaf file for goa_cow_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_cow_complex.gaf.gz - type: gaf - dataset: goa_cow_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_complex.gaf.gz - entity_type: complex - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow_isoform.gaf - label: "goa_cow_isoform gaf file" - description: "gaf file for goa_cow_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_cow_isoform.gaf.gz - type: gaf - dataset: goa_cow_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_isoform.gaf.gz - entity_type: isoform - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_cow_rna.gaf - label: "goa_cow_rna gaf file" - description: "gaf file for goa_cow_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_cow_rna.gaf.gz - type: gaf - dataset: goa_cow_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_rna.gaf.gz - entity_type: rna - status: active - species_code: Btau - taxa: - - NCBITaxon:297284 - - NCBITaxon:30523 - - NCBITaxon:9913 - - - - id: goa_dog.gaf - label: "goa_dog gaf file" - description: "gaf file for goa_dog from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_dog.gaf.gz - type: gaf - dataset: goa_dog - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog.gaf.gz - entity_type: protein - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog_complex.gaf - label: "goa_dog_complex gaf file" - description: "gaf file for goa_dog_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_dog_complex.gaf.gz - type: gaf - dataset: goa_dog_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_complex.gaf.gz - entity_type: complex - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog_isoform.gaf - label: "goa_dog_isoform gaf file" - description: "gaf file for goa_dog_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_dog_isoform.gaf.gz - type: gaf - dataset: goa_dog_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_isoform.gaf.gz - entity_type: isoform - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_dog_rna.gaf - label: "goa_dog_rna gaf file" - description: "gaf file for goa_dog_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_dog_rna.gaf.gz - type: gaf - dataset: goa_dog_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_rna.gaf.gz - entity_type: rna - status: active - species_code: Cfam - taxa: - - NCBITaxon:9615 - - - - id: goa_human.gaf - label: "goa_human gaf file" - description: "gaf file for goa_human from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_human.gaf.gz - type: gaf - dataset: goa_human - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human.gaf.gz - entity_type: protein - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human_complex.gaf - label: "goa_human_complex gaf file" - description: "gaf file for goa_human_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_human_complex.gaf.gz - type: gaf - dataset: goa_human_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_complex.gaf.gz - entity_type: complex - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human_isoform.gaf - label: "goa_human_isoform gaf file" - description: "gaf file for goa_human_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_human_isoform.gaf.gz - type: gaf - dataset: goa_human_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_isoform.gaf.gz - entity_type: isoform - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_human_rna.gaf - label: "goa_human_rna gaf file" - description: "gaf file for goa_human_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_human_rna.gaf.gz - type: gaf - dataset: goa_human_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_rna.gaf.gz - entity_type: rna - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: goa_pdb.gaf - label: "goa_pdb gaf file" - description: "gaf file for goa_pdb from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_pdb.gaf.gz - type: gaf - dataset: goa_pdb - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PDB/goa_pdb.gaf.gz - entity_type: protein - status: active - species_code: - taxa: - - - - id: goa_pig.gaf - label: "goa_pig gaf file" - description: "gaf file for goa_pig from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_pig.gaf.gz - type: gaf - dataset: goa_pig - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig.gaf.gz - entity_type: protein - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig_complex.gaf - label: "goa_pig_complex gaf file" - description: "gaf file for goa_pig_complex from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_pig_complex.gaf.gz - type: gaf - dataset: goa_pig_complex - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_complex.gaf.gz - entity_type: complex - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig_isoform.gaf - label: "goa_pig_isoform gaf file" - description: "gaf file for goa_pig_isoform from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_pig_isoform.gaf.gz - type: gaf - dataset: goa_pig_isoform - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_isoform.gaf.gz - entity_type: isoform - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_pig_rna.gaf - label: "goa_pig_rna gaf file" - description: "gaf file for goa_pig_rna from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_pig_rna.gaf.gz - type: gaf - dataset: goa_pig_rna - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_rna.gaf.gz - entity_type: rna - status: active - species_code: Sscr - taxa: - - NCBITaxon:9823 - - - - id: goa_uniprot_all.gaf - label: "goa_uniprot_all gaf file" - description: "gaf file for goa_uniprot_all from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_uniprot_all.gaf.gz - type: gaf - dataset: goa_uniprot_all - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_all.gaf.gz - entity_type: all - status: active - aggregates: goa - taxa: - - NCBITaxon:1 - - - - id: goa_uniprot_all.gpi - label: "goa_uniprot_all gpi file" - description: "gpi file for goa_uniprot_all from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_uniprot_all.gpi.gz - type: gpi - dataset: goa_uniprot_all - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_all.gpi.gz - entity_type: all - status: active - aggregates: goa - taxa: - - NCBITaxon:1 - - - - id: goa_uniprot_all.gpad - label: "goa_uniprot_all gpad file" - description: "gpad file for goa_uniprot_all from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_uniprot_all.gpa.gz - type: gpad - dataset: goa_uniprot_all - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_all.gpa.gz - entity_type: all - status: active - aggregates: goa - taxa: - - NCBITaxon:1 - - - - id: goa_uniprot_gcrp.gaf - label: "goa_uniprot_gcrp gaf file" - description: "gaf file for goa_uniprot_gcrp from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_uniprot_gcrp.gaf.gz - type: gaf - dataset: goa_uniprot_gcrp - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_gcrp.gaf.gz - entity_type: all - status: active - aggregates: goa - taxa: - - NCBITaxon:1 - - - - id: goa_uniprot_gcrp.gpi - label: "goa_uniprot_gcrp gpi file" - description: "gpi file for goa_uniprot_gcrp from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_uniprot_gcrp.gpi.gz - type: gpi - dataset: goa_uniprot_gcrp - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_gcrp.gpi.gz - entity_type: all - status: active - aggregates: goa - taxa: - - NCBITaxon:1 - - - - id: goa_uniprot_gcrp.gpad - label: "goa_uniprot_gcrp gpad file" - description: "gpad file for goa_uniprot_gcrp from EBI Gene Ontology Annotation Database" - url: http://geneontology.org/gene-associations/goa_uniprot_gcrp.gpa.gz - type: gpad - dataset: goa_uniprot_gcrp - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_gcrp.gpa.gz - entity_type: all - status: active - aggregates: goa - taxa: - - NCBITaxon:1 - - - - id: interpro2go - label: "interpro2go mapping file" - description: "external2go file to map InterPro entries to GO terms" - url: http://geneontology.org/external2go/interpro2go - type: external2go - dataset: interpro2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/interpro2go - status: active - - - - id: pfam2go - label: "pfam2go mapping file" - description: "external2go file to map Pfam entries to GO terms" - url: http://geneontology.org/external2go/pfam2go - type: external2go - dataset: pfam2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/pfam2go - status: active - - - - id: pirsf2go - label: "pirsf2go mapping file" - description: "external2go file to map PIRSF entries to GO terms" - url: http://geneontology.org/external2go/pirsf2go - type: external2go - dataset: pirsf2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/pirsf2go - status: active - - - - id: prints2go - label: "prints2go mapping file" - description: "external2go file to map PRINTS entries to GO terms" - url: http://geneontology.org/external2go/prints2go - type: external2go - dataset: prints2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/prints2go - status: active - - - - id: prodom2go - label: "prodom2go mapping file" - description: "external2go file to map PRODOM entries to GO terms" - url: http://geneontology.org/external2go/prodom2go - type: external2go - dataset: prodom2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/prodom2go - status: active - - - - id: prosite2go - label: "prosite2go mapping file" - description: "external2go file to map PROSITE entries to GO terms" - url: http://geneontology.org/external2go/prosite2go - type: external2go - dataset: prosite2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/prosite2go - status: active - - - - id: smart2go - label: "smart2go mapping file" - description: "external2go file to map SMART entries to GO terms" - url: http://geneontology.org/external2go/smart2go - type: external2go - dataset: smart2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/smart2go - status: active - - - - id: uniprotkb_kw2go - label: "uniprotkb_kw2go mapping file" - description: "external2go file to map UniProtKB keywords to GO terms" - url: http://geneontology.org/external2go/uniprotkb_kw2go - type: external2go - dataset: uniprotkb_kw2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/uniprotkb_kw2go - status: active - - - - id: uniprotkb_sl2go - label: "uniprotkb_sl2go mapping file" - description: "external2go file to map UniProtKB Subcellular Location vocabulary to GO terms" - url: http://geneontology.org/external2go/uniprotkb_sl2go - type: external2go - dataset: uniprotkb_sl2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/uniprotkb_sl2go - status: active - - - - id: unirule2go - label: "unirule2go mapping file" - description: "external2go file to map UniRule rules to GO terms" - url: http://geneontology.org/external2go/unirule2go - type: external2go - dataset: unirule2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/unirule2go - status: active - - - - id: hamap2go - label: "hamap2go mapping file" - description: "external2go file to map HAMAP family members to GO terms" - url: http://geneontology.org/external2go/hamap2go - type: external2go - dataset: hamap2go - submitter: goa - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/hamap2go - status: active - - - - id: gp2protein.human - label: "human gp2protein file" - description: "the set of UniProtKB accessions for proteins in the human proteome" - url: http://geneontology.org/gp2protein/gp2protein.human.gz - type: gp2protein - dataset: gp2protein.human - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.human.gz - status: active - species_code: Hsap - taxa: - - NCBITaxon:9606 - - - - id: gp2protein.chicken - label: "chicken gp2protein file" - description: "the set of UniProtKB accessions for proteins in the chicken proteome" - url: http://geneontology.org/gp2protein/gp2protein.chicken.gz - type: gp2protein - dataset: gp2protein.chicken - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.chicken.gz - status: active - species_code: Ggal - taxa: - - NCBITaxon:9031 - - - - id: gp2protein.uniprot - label: "uniprot gp2protein file" - description: "the set of all currently valid UniProtKB accessions" - url: http://geneontology.org/gp2protein/gp2protein.uniprot.gz - type: gp2protein - dataset: gp2protein.uniprot - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.uniprot.gz - status: active - taxa: - - NCBITaxon:1 - - - - id: gp2protein.geneid - label: "geneid gp2protein file" - description: "mapping from GeneID identifiers to UniProtKB accessions" - url: http://geneontology.org/gp2protein/gp2protein.geneid.gz - type: gp2protein - dataset: gp2protein.geneid - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.geneid.gz - status: active - taxa: - - NCBITaxon:1 - - - - id: gp2protein.refseq - label: "refseq gp2protein file" - description: "mapping from RefSeq identifiers to UniProtKB accessions" - url: http://geneontology.org/gp2protein/gp2protein.refseq.gz - type: gp2protein - dataset: gp2protein.refseq - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.refseq.gz - status: active - taxa: - - NCBITaxon:1 - - - - id: gp2protein.unigene - label: "unigene gp2protein file" - description: "mapping from UniGene identifiers to UniProtKB accessions" - url: http://geneontology.org/gp2protein/gp2protein.unigene.gz - type: gp2protein - dataset: gp2protein.unigene - submitter: goa - compression: gzip - source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.unigene.gz - status: active - taxa: - - NCBITaxon:1 + - + id: goa_chicken.gpad + label: "goa_chicken gpad file" + description: "gpad file for goa_chicken from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_chicken.gpa.gz + type: gpad + dataset: goa_chicken + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken.gpa.gz + entity_type: protein + status: active + paint: + id: paint_goa_chicken.gaf + label: "paint_goa_chicken gaf file" + description: "gaf file for paint_goa_chicken from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_goa_chicken.gaf.gz + type: gaf + dataset: paint_goa_chicken + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_chicken.gaf.gz + entity_type: chicken + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + - + id: goa_chicken.gpi + label: "goa_chicken gpi file" + description: "gpi file for goa_chicken from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_chicken.gpi.gz + type: gpi + dataset: goa_chicken + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken.gpi.gz + entity_type: protein + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_chicken_complex.gpad + label: "goa_chicken_complex gpad file" + description: "gpad file for goa_chicken_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_chicken_complex.gpa.gz + type: gpad + dataset: goa_chicken_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_complex.gpa.gz + entity_type: complex + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_chicken_complex.gpi + label: "goa_chicken_complex gpi file" + description: "gpi file for goa_chicken_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_chicken_complex.gpi.gz + type: gpi + dataset: goa_chicken_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_complex.gpi.gz + entity_type: complex + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_chicken_isoform.gpad + label: "goa_chicken_isoform gpad file" + description: "gpad file for goa_chicken_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_chicken_isoform.gpa.gz + type: gpad + dataset: goa_chicken_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_isoform.gpa.gz + entity_type: isoform + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_chicken_isoform.gpi + label: "goa_chicken_isoform gpi file" + description: "gpi file for goa_chicken_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_chicken_isoform.gpi.gz + type: gpi + dataset: goa_chicken_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_isoform.gpi.gz + entity_type: isoform + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_chicken_rna.gpad + label: "goa_chicken_rna gpad file" + description: "gpad file for goa_chicken_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_chicken_rna.gpa.gz + type: gpad + dataset: goa_chicken_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_rna.gpa.gz + entity_type: rna + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_chicken_rna.gpi + label: "goa_chicken_rna gpi file" + description: "gpi file for goa_chicken_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_chicken_rna.gpi.gz + type: gpi + dataset: goa_chicken_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_rna.gpi.gz + entity_type: rna + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_cow.gpad + label: "goa_cow gpad file" + description: "gpad file for goa_cow from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_cow.gpa.gz + type: gpad + dataset: goa_cow + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow.gpa.gz + entity_type: protein + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow.gpi + label: "goa_cow gpi file" + description: "gpi file for goa_cow from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_cow.gpi.gz + type: gpi + dataset: goa_cow + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow.gpi.gz + entity_type: protein + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow_complex.gpad + label: "goa_cow_complex gpad file" + description: "gpad file for goa_cow_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_cow_complex.gpa.gz + type: gpad + dataset: goa_cow_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_complex.gpa.gz + entity_type: complex + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow_complex.gpi + label: "goa_cow_complex gpi file" + description: "gpi file for goa_cow_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_cow_complex.gpi.gz + type: gpi + dataset: goa_cow_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_complex.gpi.gz + entity_type: complex + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow_isoform.gpad + label: "goa_cow_isoform gpad file" + description: "gpad file for goa_cow_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_cow_isoform.gpa.gz + type: gpad + dataset: goa_cow_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_isoform.gpa.gz + entity_type: isoform + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow_isoform.gpi + label: "goa_cow_isoform gpi file" + description: "gpi file for goa_cow_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_cow_isoform.gpi.gz + type: gpi + dataset: goa_cow_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_isoform.gpi.gz + entity_type: isoform + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow_rna.gpad + label: "goa_cow_rna gpad file" + description: "gpad file for goa_cow_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_cow_rna.gpa.gz + type: gpad + dataset: goa_cow_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_rna.gpa.gz + entity_type: rna + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow_rna.gpi + label: "goa_cow_rna gpi file" + description: "gpi file for goa_cow_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_cow_rna.gpi.gz + type: gpi + dataset: goa_cow_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_rna.gpi.gz + entity_type: rna + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_dog.gpad + label: "goa_dog gpad file" + description: "gpad file for goa_dog from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_dog.gpa.gz + type: gpad + dataset: goa_dog + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog.gpa.gz + entity_type: protein + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog.gpi + label: "goa_dog gpi file" + description: "gpi file for goa_dog from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_dog.gpi.gz + type: gpi + dataset: goa_dog + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog.gpi.gz + entity_type: protein + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog_complex.gpad + label: "goa_dog_complex gpad file" + description: "gpad file for goa_dog_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_dog_complex.gpa.gz + type: gpad + dataset: goa_dog_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_complex.gpa.gz + entity_type: complex + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog_complex.gpi + label: "goa_dog_complex gpi file" + description: "gpi file for goa_dog_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_dog_complex.gpi.gz + type: gpi + dataset: goa_dog_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_complex.gpi.gz + entity_type: complex + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog_isoform.gpad + label: "goa_dog_isoform gpad file" + description: "gpad file for goa_dog_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_dog_isoform.gpa.gz + type: gpad + dataset: goa_dog_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_isoform.gpa.gz + entity_type: isoform + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog_isoform.gpi + label: "goa_dog_isoform gpi file" + description: "gpi file for goa_dog_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_dog_isoform.gpi.gz + type: gpi + dataset: goa_dog_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_isoform.gpi.gz + entity_type: isoform + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog_rna.gpad + label: "goa_dog_rna gpad file" + description: "gpad file for goa_dog_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_dog_rna.gpa.gz + type: gpad + dataset: goa_dog_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_rna.gpa.gz + entity_type: rna + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog_rna.gpi + label: "goa_dog_rna gpi file" + description: "gpi file for goa_dog_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_dog_rna.gpi.gz + type: gpi + dataset: goa_dog_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_rna.gpi.gz + entity_type: rna + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_human.gpad + label: "goa_human gpad file" + description: "gpad file for goa_human from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_human.gpa.gz + type: gpad + dataset: goa_human + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human.gpa.gz + entity_type: protein + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human.gpi + label: "goa_human gpi file" + description: "gpi file for goa_human from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_human.gpi.gz + type: gpi + dataset: goa_human + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human.gpi.gz + entity_type: protein + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human_complex.gpad + label: "goa_human_complex gpad file" + description: "gpad file for goa_human_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_human_complex.gpa.gz + type: gpad + dataset: goa_human_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_complex.gpa.gz + entity_type: complex + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human_complex.gpi + label: "goa_human_complex gpi file" + description: "gpi file for goa_human_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_human_complex.gpi.gz + type: gpi + dataset: goa_human_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_complex.gpi.gz + entity_type: complex + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human_isoform.gpad + label: "goa_human_isoform gpad file" + description: "gpad file for goa_human_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_human_isoform.gpa.gz + type: gpad + dataset: goa_human_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_isoform.gpa.gz + entity_type: isoform + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human_isoform.gpi + label: "goa_human_isoform gpi file" + description: "gpi file for goa_human_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_human_isoform.gpi.gz + type: gpi + dataset: goa_human_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_isoform.gpi.gz + entity_type: isoform + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human_rna.gpad + label: "goa_human_rna gpad file" + description: "gpad file for goa_human_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_human_rna.gpa.gz + type: gpad + dataset: goa_human_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_rna.gpa.gz + entity_type: rna + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human_rna.gpi + label: "goa_human_rna gpi file" + description: "gpi file for goa_human_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_human_rna.gpi.gz + type: gpi + dataset: goa_human_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_rna.gpi.gz + entity_type: rna + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_pig.gpad + label: "goa_pig gpad file" + description: "gpad file for goa_pig from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_pig.gpa.gz + type: gpad + dataset: goa_pig + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig.gpa.gz + entity_type: protein + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig.gpi + label: "goa_pig gpi file" + description: "gpi file for goa_pig from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_pig.gpi.gz + type: gpi + dataset: goa_pig + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig.gpi.gz + entity_type: protein + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig_complex.gpad + label: "goa_pig_complex gpad file" + description: "gpad file for goa_pig_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_pig_complex.gpa.gz + type: gpad + dataset: goa_pig_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_complex.gpa.gz + entity_type: complex + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig_complex.gpi + label: "goa_pig_complex gpi file" + description: "gpi file for goa_pig_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_pig_complex.gpi.gz + type: gpi + dataset: goa_pig_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_complex.gpi.gz + entity_type: complex + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig_isoform.gpad + label: "goa_pig_isoform gpad file" + description: "gpad file for goa_pig_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_pig_isoform.gpa.gz + type: gpad + dataset: goa_pig_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_isoform.gpa.gz + entity_type: isoform + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig_isoform.gpi + label: "goa_pig_isoform gpi file" + description: "gpi file for goa_pig_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_pig_isoform.gpi.gz + type: gpi + dataset: goa_pig_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_isoform.gpi.gz + entity_type: isoform + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig_rna.gpad + label: "goa_pig_rna gpad file" + description: "gpad file for goa_pig_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_pig_rna.gpa.gz + type: gpad + dataset: goa_pig_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_rna.gpa.gz + entity_type: rna + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig_rna.gpi + label: "goa_pig_rna gpi file" + description: "gpi file for goa_pig_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gpad-gpi/release/goa_pig_rna.gpi.gz + type: gpi + dataset: goa_pig_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_rna.gpi.gz + entity_type: rna + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_chicken.gaf + label: "goa_chicken gaf file" + description: "gaf file for goa_chicken from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_chicken.gaf.gz + type: gaf + dataset: goa_chicken + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken.gaf.gz + entity_type: protein + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_chicken_complex.gaf + label: "goa_chicken_complex gaf file" + description: "gaf file for goa_chicken_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_chicken_complex.gaf.gz + type: gaf + dataset: goa_chicken_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_complex.gaf.gz + entity_type: complex + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_chicken_isoform.gaf + label: "goa_chicken_isoform gaf file" + description: "gaf file for goa_chicken_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_chicken_isoform.gaf.gz + type: gaf + dataset: goa_chicken_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_isoform.gaf.gz + entity_type: isoform + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_chicken_rna.gaf + label: "goa_chicken_rna gaf file" + description: "gaf file for goa_chicken_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_chicken_rna.gaf.gz + type: gaf + dataset: goa_chicken_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/CHICKEN/goa_chicken_rna.gaf.gz + entity_type: rna + status: active + species_code: Ggal + taxa: + - NCBITaxon:208524 + - NCBITaxon:208525 + - NCBITaxon:208526 + - NCBITaxon:400035 + - NCBITaxon:9031 + + - + id: goa_cow.gaf + label: "goa_cow gaf file" + description: "gaf file for goa_cow from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_cow.gaf.gz + type: gaf + dataset: goa_cow + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow.gaf.gz + entity_type: protein + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow_complex.gaf + label: "goa_cow_complex gaf file" + description: "gaf file for goa_cow_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_cow_complex.gaf.gz + type: gaf + dataset: goa_cow_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_complex.gaf.gz + entity_type: complex + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow_isoform.gaf + label: "goa_cow_isoform gaf file" + description: "gaf file for goa_cow_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_cow_isoform.gaf.gz + type: gaf + dataset: goa_cow_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_isoform.gaf.gz + entity_type: isoform + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_cow_rna.gaf + label: "goa_cow_rna gaf file" + description: "gaf file for goa_cow_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_cow_rna.gaf.gz + type: gaf + dataset: goa_cow_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/COW/goa_cow_rna.gaf.gz + entity_type: rna + status: active + species_code: Btau + taxa: + - NCBITaxon:297284 + - NCBITaxon:30523 + - NCBITaxon:9913 + + - + id: goa_dog.gaf + label: "goa_dog gaf file" + description: "gaf file for goa_dog from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_dog.gaf.gz + type: gaf + dataset: goa_dog + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog.gaf.gz + entity_type: protein + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog_complex.gaf + label: "goa_dog_complex gaf file" + description: "gaf file for goa_dog_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_dog_complex.gaf.gz + type: gaf + dataset: goa_dog_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_complex.gaf.gz + entity_type: complex + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog_isoform.gaf + label: "goa_dog_isoform gaf file" + description: "gaf file for goa_dog_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_dog_isoform.gaf.gz + type: gaf + dataset: goa_dog_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_isoform.gaf.gz + entity_type: isoform + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_dog_rna.gaf + label: "goa_dog_rna gaf file" + description: "gaf file for goa_dog_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_dog_rna.gaf.gz + type: gaf + dataset: goa_dog_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/DOG/goa_dog_rna.gaf.gz + entity_type: rna + status: active + species_code: Cfam + taxa: + - NCBITaxon:9615 + + - + id: goa_human.gaf + label: "goa_human gaf file" + description: "gaf file for goa_human from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_human.gaf.gz + type: gaf + dataset: goa_human + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human.gaf.gz + entity_type: protein + status: active + paint: + id: paint_goa_human.gaf + label: "paint_goa_human gaf file" + description: "gaf file for paint_goa_human from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_goa_human.gaf.gz + type: gaf + dataset: paint_goa_human + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_human.gaf.gz + entity_type: human + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human_complex.gaf + label: "goa_human_complex gaf file" + description: "gaf file for goa_human_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_human_complex.gaf.gz + type: gaf + dataset: goa_human_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_complex.gaf.gz + entity_type: complex + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human_isoform.gaf + label: "goa_human_isoform gaf file" + description: "gaf file for goa_human_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_human_isoform.gaf.gz + type: gaf + dataset: goa_human_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_isoform.gaf.gz + entity_type: isoform + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_human_rna.gaf + label: "goa_human_rna gaf file" + description: "gaf file for goa_human_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_human_rna.gaf.gz + type: gaf + dataset: goa_human_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/HUMAN/goa_human_rna.gaf.gz + entity_type: rna + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: goa_pdb.gaf + label: "goa_pdb gaf file" + description: "gaf file for goa_pdb from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_pdb.gaf.gz + type: gaf + dataset: goa_pdb + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PDB/goa_pdb.gaf.gz + entity_type: protein + status: active + species_code: + taxa: + + - + id: goa_pig.gaf + label: "goa_pig gaf file" + description: "gaf file for goa_pig from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_pig.gaf.gz + type: gaf + dataset: goa_pig + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig.gaf.gz + entity_type: protein + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig_complex.gaf + label: "goa_pig_complex gaf file" + description: "gaf file for goa_pig_complex from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_pig_complex.gaf.gz + type: gaf + dataset: goa_pig_complex + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_complex.gaf.gz + entity_type: complex + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig_isoform.gaf + label: "goa_pig_isoform gaf file" + description: "gaf file for goa_pig_isoform from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_pig_isoform.gaf.gz + type: gaf + dataset: goa_pig_isoform + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_isoform.gaf.gz + entity_type: isoform + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_pig_rna.gaf + label: "goa_pig_rna gaf file" + description: "gaf file for goa_pig_rna from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_pig_rna.gaf.gz + type: gaf + dataset: goa_pig_rna + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/PIG/goa_pig_rna.gaf.gz + entity_type: rna + status: active + species_code: Sscr + taxa: + - NCBITaxon:9823 + + - + id: goa_uniprot_all.gaf + label: "goa_uniprot_all gaf file" + description: "gaf file for goa_uniprot_all from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_uniprot_all.gaf.gz + type: gaf + dataset: goa_uniprot_all + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_all.gaf.gz + entity_type: all + status: active + aggregates: goa + taxa: + - NCBITaxon:1 + + - + id: goa_uniprot_all.gpi + label: "goa_uniprot_all gpi file" + description: "gpi file for goa_uniprot_all from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_uniprot_all.gpi.gz + type: gpi + dataset: goa_uniprot_all + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_all.gpi.gz + entity_type: all + status: active + aggregates: goa + taxa: + - NCBITaxon:1 + + - + id: goa_uniprot_all.gpad + label: "goa_uniprot_all gpad file" + description: "gpad file for goa_uniprot_all from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_uniprot_all.gpa.gz + type: gpad + dataset: goa_uniprot_all + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_all.gpa.gz + entity_type: all + status: active + aggregates: goa + taxa: + - NCBITaxon:1 + + - + id: goa_uniprot_gcrp.gaf + label: "goa_uniprot_gcrp gaf file" + description: "gaf file for goa_uniprot_gcrp from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_uniprot_gcrp.gaf.gz + type: gaf + dataset: goa_uniprot_gcrp + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_gcrp.gaf.gz + entity_type: all + status: active + aggregates: goa + taxa: + - NCBITaxon:1 + + - + id: goa_uniprot_gcrp.gpi + label: "goa_uniprot_gcrp gpi file" + description: "gpi file for goa_uniprot_gcrp from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_uniprot_gcrp.gpi.gz + type: gpi + dataset: goa_uniprot_gcrp + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_gcrp.gpi.gz + entity_type: all + status: active + aggregates: goa + taxa: + - NCBITaxon:1 + + - + id: goa_uniprot_gcrp.gpad + label: "goa_uniprot_gcrp gpad file" + description: "gpad file for goa_uniprot_gcrp from EBI Gene Ontology Annotation Database" + url: http://geneontology.org/gene-associations/goa_uniprot_gcrp.gpa.gz + type: gpad + dataset: goa_uniprot_gcrp + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_gcrp.gpa.gz + entity_type: all + status: active + aggregates: goa + taxa: + - NCBITaxon:1 + + - + id: interpro2go + label: "interpro2go mapping file" + description: "external2go file to map InterPro entries to GO terms" + url: http://geneontology.org/external2go/interpro2go + type: external2go + dataset: interpro2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/interpro2go + status: active + + - + id: pfam2go + label: "pfam2go mapping file" + description: "external2go file to map Pfam entries to GO terms" + url: http://geneontology.org/external2go/pfam2go + type: external2go + dataset: pfam2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/pfam2go + status: active + + - + id: pirsf2go + label: "pirsf2go mapping file" + description: "external2go file to map PIRSF entries to GO terms" + url: http://geneontology.org/external2go/pirsf2go + type: external2go + dataset: pirsf2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/pirsf2go + status: active + + - + id: prints2go + label: "prints2go mapping file" + description: "external2go file to map PRINTS entries to GO terms" + url: http://geneontology.org/external2go/prints2go + type: external2go + dataset: prints2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/prints2go + status: active + + - + id: prodom2go + label: "prodom2go mapping file" + description: "external2go file to map PRODOM entries to GO terms" + url: http://geneontology.org/external2go/prodom2go + type: external2go + dataset: prodom2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/prodom2go + status: active + + - + id: prosite2go + label: "prosite2go mapping file" + description: "external2go file to map PROSITE entries to GO terms" + url: http://geneontology.org/external2go/prosite2go + type: external2go + dataset: prosite2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/prosite2go + status: active + + - + id: smart2go + label: "smart2go mapping file" + description: "external2go file to map SMART entries to GO terms" + url: http://geneontology.org/external2go/smart2go + type: external2go + dataset: smart2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/smart2go + status: active + + - + id: uniprotkb_kw2go + label: "uniprotkb_kw2go mapping file" + description: "external2go file to map UniProtKB keywords to GO terms" + url: http://geneontology.org/external2go/uniprotkb_kw2go + type: external2go + dataset: uniprotkb_kw2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/uniprotkb_kw2go + status: active + + - + id: uniprotkb_sl2go + label: "uniprotkb_sl2go mapping file" + description: "external2go file to map UniProtKB Subcellular Location vocabulary to GO terms" + url: http://geneontology.org/external2go/uniprotkb_sl2go + type: external2go + dataset: uniprotkb_sl2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/uniprotkb_sl2go + status: active + + - + id: unirule2go + label: "unirule2go mapping file" + description: "external2go file to map UniRule rules to GO terms" + url: http://geneontology.org/external2go/unirule2go + type: external2go + dataset: unirule2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/unirule2go + status: active + + - + id: hamap2go + label: "hamap2go mapping file" + description: "external2go file to map HAMAP family members to GO terms" + url: http://geneontology.org/external2go/hamap2go + type: external2go + dataset: hamap2go + submitter: goa + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/hamap2go + status: active + + - + id: gp2protein.human + label: "human gp2protein file" + description: "the set of UniProtKB accessions for proteins in the human proteome" + url: http://geneontology.org/gp2protein/gp2protein.human.gz + type: gp2protein + dataset: gp2protein.human + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.human.gz + status: active + species_code: Hsap + taxa: + - NCBITaxon:9606 + + - + id: gp2protein.chicken + label: "chicken gp2protein file" + description: "the set of UniProtKB accessions for proteins in the chicken proteome" + url: http://geneontology.org/gp2protein/gp2protein.chicken.gz + type: gp2protein + dataset: gp2protein.chicken + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.chicken.gz + status: active + species_code: Ggal + taxa: + - NCBITaxon:9031 + + - + id: gp2protein.uniprot + label: "uniprot gp2protein file" + description: "the set of all currently valid UniProtKB accessions" + url: http://geneontology.org/gp2protein/gp2protein.uniprot.gz + type: gp2protein + dataset: gp2protein.uniprot + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.uniprot.gz + status: active + taxa: + - NCBITaxon:1 + + - + id: gp2protein.geneid + label: "geneid gp2protein file" + description: "mapping from GeneID identifiers to UniProtKB accessions" + url: http://geneontology.org/gp2protein/gp2protein.geneid.gz + type: gp2protein + dataset: gp2protein.geneid + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.geneid.gz + status: active + taxa: + - NCBITaxon:1 + + - + id: gp2protein.refseq + label: "refseq gp2protein file" + description: "mapping from RefSeq identifiers to UniProtKB accessions" + url: http://geneontology.org/gp2protein/gp2protein.refseq.gz + type: gp2protein + dataset: gp2protein.refseq + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.refseq.gz + status: active + taxa: + - NCBITaxon:1 + + - + id: gp2protein.unigene + label: "unigene gp2protein file" + description: "mapping from UniGene identifiers to UniProtKB accessions" + url: http://geneontology.org/gp2protein/gp2protein.unigene.gz + type: gp2protein + dataset: gp2protein.unigene + submitter: goa + compression: gzip + source: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/gp2protein/gp2protein.unigene.gz + status: active + taxa: + - NCBITaxon:1 diff --git a/metadata/datasets/mgi.yaml b/metadata/datasets/mgi.yaml index 32df8f09..1405fec8 100644 --- a/metadata/datasets/mgi.yaml +++ b/metadata/datasets/mgi.yaml @@ -7,51 +7,62 @@ project_url: "http://www.informatics.jax.org/" funding_source: "NHGRI of US National Institutes of Health" email_report: "harold.drabkin@jax.org" datasets: - - - id: mgi.gaf - label: "mgi gaf file" - description: "gaf file for mgi from Mouse Genome Informatics" - url: http://geneontology.org/gene-associations/gene_association.mgi.gz - type: gaf - dataset: mgi - submitter: mgi - compression: gzip - source: http://www.informatics.jax.org/downloads/reports/gene_association.mgi.gz - entity_type: - status: active - species_code: Mmus - taxa: - - NCBITaxon:10090 + - + id: mgi.gaf + label: "mgi gaf file" + description: "gaf file for mgi from Mouse Genome Informatics" + url: http://geneontology.org/gene-associations/gene_association.mgi.gz + type: gaf + dataset: mgi + submitter: mgi + compression: gzip + source: http://www.informatics.jax.org/downloads/reports/gene_association.mgi.gz + entity_type: + status: active + paint: + id: paint_mgi.gaf + label: "paint_mgi gaf file" + description: "gaf file for paint_mgi from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_mgi.gaf.gz + type: gaf + dataset: paint_mgi + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_mgi.gaf.gz + entity_type: + status: active + species_code: Mmus + taxa: + - NCBITaxon:10090 - - - id: mgi.gpad - label: "mgi gpad file" - description: "gpad file for mgi from Mouse Genome Informatics" - url: http://geneontology.org/gpad-gpi/release/mgi.gpa.gz - type: gpad - dataset: mgi - submitter: mgi - compression: gzip - source: http://www.informatics.jax.org/downloads/reports/mgi.gpa.gz - entity_type: - status: active - species_code: Mmus - taxa: - - NCBITaxon:10090 - - - - id: mgi.gpi - label: "mgi gpi file" - description: "gpi file for mgi from Mouse Genome Informatics" - url: http://geneontology.org/gpad-gpi/release/mgi.gpi.gz - type: gpi - dataset: mgi - submitter: mgi - compression: gzip - source: http://www.informatics.jax.org/downloads/reports/mgi.gpi.gz - entity_type: - status: active - species_code: Mmus - taxa: - - NCBITaxon:10090 + - + id: mgi.gpad + label: "mgi gpad file" + description: "gpad file for mgi from Mouse Genome Informatics" + url: http://geneontology.org/gpad-gpi/release/mgi.gpa.gz + type: gpad + dataset: mgi + submitter: mgi + compression: gzip + source: http://www.informatics.jax.org/downloads/reports/mgi.gpa.gz + entity_type: + status: active + species_code: Mmus + taxa: + - NCBITaxon:10090 + - + id: mgi.gpi + label: "mgi gpi file" + description: "gpi file for mgi from Mouse Genome Informatics" + url: http://geneontology.org/gpad-gpi/release/mgi.gpi.gz + type: gpi + dataset: mgi + submitter: mgi + compression: gzip + source: http://www.informatics.jax.org/downloads/reports/mgi.gpi.gz + entity_type: + status: active + species_code: Mmus + taxa: + - NCBITaxon:10090 diff --git a/metadata/datasets/paint.yaml b/metadata/datasets/paint.yaml index 5e48c492..f52671b3 100644 --- a/metadata/datasets/paint.yaml +++ b/metadata/datasets/paint.yaml @@ -2,244 +2,17 @@ id: paint label: PAINT description: "GO data for PAINT" datasets: - - - id: paint_cgd.gaf - label: "paint_cgd gaf file" - description: "gaf file for paint_cgd from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_cgd.gaf.gz - type: gaf - dataset: paint_cgd - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_cgd.gaf.gz - entity_type: - status: active - species_code: - taxa: - - NCBITaxon:5476 - merges_into: cgd - - - - id: paint_dictybase.gaf - label: "paint_dictybase gaf file" - description: "gaf file for paint_dictybase from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_dictyBase.gaf.gz - type: gaf - dataset: paint_dictybase - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_dictyBase.gaf.gz - entity_type: - status: active - species_code: Ddis - taxa: - - NCBITaxon:352472 - - NCBITaxon:366501 - - NCBITaxon:44689 - - NCBITaxon:5782 - merges_into: dictybase - - - - id: paint_ecocyc.gaf - label: "paint_ecocyc gaf file" - description: "gaf file for paint_ecocyc from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_ecocyc.gaf.gz - type: gaf - dataset: paint_ecocyc - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_ecocyc.gaf.gz - entity_type: - status: active - species_code: - taxa: - - NCBITaxon:83333 - merges_into: ecocyc - - - - id: paint_fb.gaf - label: "paint_fb gaf file" - description: "gaf file for paint_fb from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_fb.gaf.gz - type: gaf - dataset: paint_fb - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_fb.gaf.gz - entity_type: - status: active - species_code: Dmel - taxa: - - NCBITaxon:7227 - merges_into: fb - - - - id: paint_goa_chicken.gaf - label: "paint_goa_chicken gaf file" - description: "gaf file for paint_goa_chicken from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_goa_chicken.gaf.gz - type: gaf - dataset: paint_goa_chicken - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_chicken.gaf.gz - entity_type: chicken - status: active - species_code: - taxa: - merges_into: goa_chicken - - - - id: paint_goa_human.gaf - label: "paint_goa_human gaf file" - description: "gaf file for paint_goa_human from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_goa_human.gaf.gz - type: gaf - dataset: paint_goa_human - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_human.gaf.gz - entity_type: human - status: active - species_code: - taxa: - merges_into: goa_human - - - - id: paint_mgi.gaf - label: "paint_mgi gaf file" - description: "gaf file for paint_mgi from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_mgi.gaf.gz - type: gaf - dataset: paint_mgi - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_mgi.gaf.gz - entity_type: - status: active - species_code: Mmus - taxa: - - NCBITaxon:10090 - merges_into: mgi - - - - id: paint_other.gaf - label: "paint_other gaf file" - description: "gaf file for paint_other from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_other.gaf.gz - type: gaf - dataset: paint_other - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_other.gaf.gz - entity_type: - status: active - species_code: - taxa: [] - - - - id: paint_pombase.gaf - label: "paint_pombase gaf file" - description: "gaf file for paint_pombase from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_pombase.gaf.gz - type: gaf - dataset: paint_pombase - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_pombase.gaf.gz - entity_type: - status: active - species_code: Spom - taxa: - - NCBITaxon:284812 - - NCBITaxon:4896 - merges_into: pombase - - - - id: paint_rgd.gaf - label: "paint_rgd gaf file" - description: "gaf file for paint_rgd from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_rgd.gaf.gz - type: gaf - dataset: paint_rgd - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_rgd.gaf.gz - entity_type: - status: active - species_code: Rnor - taxa: - - NCBITaxon:10116 - merges_into: rgd - - - - id: paint_sgd.gaf - label: "paint_sgd gaf file" - description: "gaf file for paint_sgd from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_sgd.gaf.gz - type: gaf - dataset: paint_sgd - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_sgd.gaf.gz - entity_type: - status: active - species_code: Scer - taxa: - - NCBITaxon:285006 - - NCBITaxon:307796 - - NCBITaxon:41870 - - NCBITaxon:4932 - - NCBITaxon:559292 - merges_into: sgd - - - - id: paint_tair.gaf - label: "paint_tair gaf file" - description: "gaf file for paint_tair from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_tair.gaf.gz - type: gaf - dataset: paint_tair - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_tair.gaf.gz - entity_type: - status: active - species_code: Atal - taxa: - - NCBITaxon:3702 - merges_into: tair - - - - id: paint_wb.gaf - label: "paint_wb gaf file" - description: "gaf file for paint_wb from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_wb.gaf.gz - type: gaf - dataset: paint_wb - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_wb.gaf.gz - entity_type: - status: active - species_code: Cele - taxa: - - NCBITaxon:6239 - merges_into: wb - - - - id: paint_zfin.gaf - label: "paint_zfin gaf file" - description: "gaf file for paint_zfin from PAINT" - url: http://geneontology.org/gene-associations/gene_association.paint_zfin.gaf.gz - type: gaf - dataset: paint_zfin - submitter: paint - compression: gzip - source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_zfin.gaf.gz - entity_type: - status: active - species_code: Drer - taxa: - - NCBITaxon:7955 - merges_into: zfin + - + id: paint_other.gaf + label: "paint_other gaf file" + description: "gaf file for paint_other from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_other.gaf.gz + type: gaf + dataset: paint_other + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_other.gaf.gz + entity_type: + status: active + species_code: + taxa: [] diff --git a/metadata/datasets/pombase.yaml b/metadata/datasets/pombase.yaml index 199099e9..14b5e1d8 100644 --- a/metadata/datasets/pombase.yaml +++ b/metadata/datasets/pombase.yaml @@ -7,20 +7,31 @@ project_url: "http://www.pombase.org/" funding_source: "Wellcome Trust" email_report: "helpdesk@pombase.org" datasets: - - - id: pombase.gaf - label: "pombase gaf file" - description: "gaf file for pombase from PomBase" - url: http://geneontology.org/gene-associations/gene_association.pombase.gz - type: gaf - dataset: pombase - submitter: pombase - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.pombase.gz - entity_type: - status: active - species_code: Spom - taxa: - - NCBITaxon:284812 - - NCBITaxon:4896 - + - + id: pombase.gaf + label: "pombase gaf file" + description: "gaf file for pombase from PomBase" + url: http://geneontology.org/gene-associations/gene_association.pombase.gz + type: gaf + dataset: pombase + submitter: pombase + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.pombase.gz + entity_type: + status: active + paint: + id: paint_mgi.gaf + label: "paint_mgi gaf file" + description: "gaf file for paint_mgi from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_mgi.gaf.gz + type: gaf + dataset: paint_mgi + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_mgi.gaf.gz + entity_type: + status: active + species_code: Spom + taxa: + - NCBITaxon:284812 + - NCBITaxon:4896 diff --git a/metadata/datasets/rgd.yaml b/metadata/datasets/rgd.yaml index 396b14c8..1d2de3d1 100644 --- a/metadata/datasets/rgd.yaml +++ b/metadata/datasets/rgd.yaml @@ -7,19 +7,30 @@ project_url: "http://rgd.mcw.edu/" funding_source: "NHLBI at US NIH, grant number 2R01HL064541" email_report: "rgd.developers@mcw.edu, rgd.pipelines@mcw.edu" datasets: - - - id: rgd.gaf - label: "rgd gaf file" - description: "gaf file for rgd from Rat Genome Database" - url: http://geneontology.org/gene-associations/gene_association.rgd.gz - type: gaf - dataset: rgd - submitter: rgd - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.rgd.gz - entity_type: - status: active - species_code: Rnor - taxa: - - NCBITaxon:10116 - + - + id: rgd.gaf + label: "rgd gaf file" + description: "gaf file for rgd from Rat Genome Database" + url: http://geneontology.org/gene-associations/gene_association.rgd.gz + type: gaf + dataset: rgd + submitter: rgd + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.rgd.gz + entity_type: + status: active + paint: + id: paint_rgd.gaf + label: "paint_rgd gaf file" + description: "gaf file for paint_rgd from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_rgd.gaf.gz + type: gaf + dataset: paint_rgd + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_rgd.gaf.gz + entity_type: + status: active + species_code: Rnor + taxa: + - NCBITaxon:10116 diff --git a/metadata/datasets/sgd.yaml b/metadata/datasets/sgd.yaml index bb9394d5..9d4a13be 100644 --- a/metadata/datasets/sgd.yaml +++ b/metadata/datasets/sgd.yaml @@ -7,23 +7,34 @@ project_url: "http://www.yeastgenome.org/" funding_source: "NHGRI of US National Institutes of Health, HG001315" email_report: "sgd-go-curator@genome.stanford.edu" datasets: - - - id: sgd.gaf - label: "sgd gaf file" - description: "gaf file for sgd from Saccharomyces Genome Database" - url: http://geneontology.org/gene-associations/gene_association.sgd.gz - type: gaf - dataset: sgd - submitter: sgd - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.sgd.gz - entity_type: - status: active - species_code: Scer - taxa: - - NCBITaxon:285006 - - NCBITaxon:307796 - - NCBITaxon:41870 - - NCBITaxon:4932 - - NCBITaxon:559292 - + - + id: sgd.gaf + label: "sgd gaf file" + description: "gaf file for sgd from Saccharomyces Genome Database" + url: http://geneontology.org/gene-associations/gene_association.sgd.gz + type: gaf + dataset: sgd + submitter: sgd + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.sgd.gz + entity_type: + status: active + paint: + id: paint_sgd.gaf + label: "paint_sgd gaf file" + description: "gaf file for paint_sgd from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_sgd.gaf.gz + type: gaf + dataset: paint_sgd + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_sgd.gaf.gz + entity_type: + status: active + species_code: Scer + taxa: + - NCBITaxon:285006 + - NCBITaxon:307796 + - NCBITaxon:41870 + - NCBITaxon:4932 + - NCBITaxon:559292 diff --git a/metadata/datasets/tair.yaml b/metadata/datasets/tair.yaml index 8bd89c54..d416dabc 100644 --- a/metadata/datasets/tair.yaml +++ b/metadata/datasets/tair.yaml @@ -7,19 +7,30 @@ project_url: "http://www.arabidopsis.org" funding_source: "The TAIR project is funded by academic institutional, corporate, and individual subscriptions. TAIR is administered by the 501(c)(3) non-profit Phoenix Bioinformatics." email_report: "curator@arabidopsis.org" datasets: - - - id: tair.gaf - label: "tair gaf file" - description: "gaf file for tair from The Arabidopsis Information Resource" - url: http://geneontology.org/gene-associations/gene_association.tair.gz - type: gaf - dataset: tair - submitter: tair - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.tair.gz - entity_type: - status: active - species_code: Atal - taxa: - - NCBITaxon:3702 - + - + id: tair.gaf + label: "tair gaf file" + description: "gaf file for tair from The Arabidopsis Information Resource" + url: http://geneontology.org/gene-associations/gene_association.tair.gz + type: gaf + dataset: tair + submitter: tair + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.tair.gz + entity_type: + status: active + paint: + id: paint_tair.gaf + label: "paint_tair gaf file" + description: "gaf file for paint_tair from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_tair.gaf.gz + type: gaf + dataset: paint_tair + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_tair.gaf.gz + entity_type: + status: active + species_code: Atal + taxa: + - NCBITaxon:3702 diff --git a/metadata/datasets/wb.yaml b/metadata/datasets/wb.yaml index 95e03c9f..8ed27376 100644 --- a/metadata/datasets/wb.yaml +++ b/metadata/datasets/wb.yaml @@ -7,33 +7,45 @@ project_url: "http://www.wormbase.org/" funding_source: "US National Institutes of Health, UK Medical Research Council, UK Biotechnology and Biological Sciences Research Council" email_report: "ranjana@its.caltech.edu,vanauken@caltech.edu" datasets: - - - id: wb.gaf - label: "wb gaf file" - description: "gaf file for wb from WormBase database of nematode biology" - url: http://geneontology.org/gene-associations/gene_association.wb.gz - type: gaf - dataset: wb - submitter: wb - compression: gzip - source: http://geneontology.org/gene-associations/submission/gene_association.wb.gz - entity_type: - status: active - species_code: Cele - taxa: - - NCBITaxon:6239 - - - id: wb.gpi - label: "wb gpi file" - description: "gpi file for Caenorhabditis elegans from WormBase" - url: http://geneontology.org/gpad-gpi/release/wb.gpi.gz - type: gpi - dataset: wb - submitter: wb - compression: gzip - source: ftp://ftp.wormbase.org/pub/wormbase/species/c_elegans/PRJNA13758/annotation/gene_product_info/c_elegans.PRJNA13758.current.gene_product_info.gpi.gz - entity_type: - status: active - species_code: Cele - taxa: - - NCBITaxon:6239 + - + id: wb.gaf + label: "wb gaf file" + description: "gaf file for wb from WormBase database of nematode biology" + url: http://geneontology.org/gene-associations/gene_association.wb.gz + type: gaf + dataset: wb + submitter: wb + compression: gzip + source: http://geneontology.org/gene-associations/submission/gene_association.wb.gz + entity_type: + status: active + paint: + id: paint_wb.gaf + label: "paint_wb gaf file" + description: "gaf file for paint_wb from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_wb.gaf.gz + type: gaf + dataset: paint_wb + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_wb.gaf.gz + entity_type: + status: active + species_code: Cele + taxa: + - NCBITaxon:6239 + - + id: wb.gpi + label: "wb gpi file" + description: "gpi file for Caenorhabditis elegans from WormBase" + url: http://geneontology.org/gpad-gpi/release/wb.gpi.gz + type: gpi + dataset: wb + submitter: wb + compression: gzip + source: ftp://ftp.wormbase.org/pub/wormbase/species/c_elegans/PRJNA13758/annotation/gene_product_info/c_elegans.PRJNA13758.current.gene_product_info.gpi.gz + entity_type: + status: active + species_code: Cele + taxa: + - NCBITaxon:6239 diff --git a/metadata/datasets/zfin.yaml b/metadata/datasets/zfin.yaml index e8284bc2..f178d226 100644 --- a/metadata/datasets/zfin.yaml +++ b/metadata/datasets/zfin.yaml @@ -7,33 +7,45 @@ project_url: "https://zfin.org/" funding_source: "NIH (P41 HG002659)" email_report: "dhowe@zfin.org,sabrina@zfin.org" datasets: - - - id: zfin.gaf - label: "zfin gaf file" - description: "gaf file for zfin from Zebrafish Information Network" - url: http://geneontology.org/gene-associations/gene_association.zfin.gz - type: gaf - dataset: zfin - submitter: zfin - compression: gzip - source: https://zfin.org/downloads/gene_association.zfin.gz - entity_type: - status: active - species_code: Drer - taxa: - - NCBITaxon:7955 - - - id: zfin.gpi - label: "zfin gpi file" - description: "gpi file for zfin from Zebrafish Information Network" - url: http://geneontology.org/gpad-gpi/release/zfin.gpi.gz - type: gpi - dataset: zfin - submitter: zfin - compression: gzip - source: https://zfin.org/downloads/zfin.gpi.gz - entity_type: - status: active - species_code: Drer - taxa: - - NCBITaxon:7955 + - + id: zfin.gaf + label: "zfin gaf file" + description: "gaf file for zfin from Zebrafish Information Network" + url: http://geneontology.org/gene-associations/gene_association.zfin.gz + type: gaf + dataset: zfin + submitter: zfin + compression: gzip + source: https://zfin.org/downloads/gene_association.zfin.gz + entity_type: + status: active + paint: + id: paint_zfin.gaf + label: "paint_zfin gaf file" + description: "gaf file for paint_zfin from PAINT" + url: http://geneontology.org/gene-associations/gene_association.paint_zfin.gaf.gz + type: gaf + dataset: paint_zfin + submitter: paint + compression: gzip + source: ftp://ftp.pantherdb.org/downloads/paint/presubmission/gene_association.paint_zfin.gaf.gz + entity_type: + status: active + species_code: Drer + taxa: + - NCBITaxon:7955 + - + id: zfin.gpi + label: "zfin gpi file" + description: "gpi file for zfin from Zebrafish Information Network" + url: http://geneontology.org/gpad-gpi/release/zfin.gpi.gz + type: gpi + dataset: zfin + submitter: zfin + compression: gzip + source: https://zfin.org/downloads/zfin.gpi.gz + entity_type: + status: active + species_code: Drer + taxa: + - NCBITaxon:7955 diff --git a/pipeline/Makefile b/pipeline/Makefile index bafe81c6..fb515e87 100644 --- a/pipeline/Makefile +++ b/pipeline/Makefile @@ -10,7 +10,7 @@ EXCLUDES = goa_uniprot_gcrp goa_pdb GROUPS = $(foreach path,$(shell find $(METADATA_DIR)/datasets -name '*.yaml'),$(basename $(notdir $(path)))) # for each group, get the base target path from each gaf dataset in a group yaml. # Ex: fb -> target/groups/fb/fb; goa -> target/groups/goa/goa_uniprot_all target/groups/goa/goa_chicken_complex [etc] -_ALL_BASE_GROUP_PATHS = $(foreach group,$(GROUPS),$(addprefix target/groups/$(group)/,$(basename $(shell cat ../metadata/datasets/$(group).yaml | grep "id:.*gaf" | awk '{ print $$2 }')))) +_ALL_BASE_GROUP_PATHS = $(foreach group,$(GROUPS),$(addprefix target/groups/$(group)/,$(shell python3 util/group_gaf_id.py $(group) ))) # This turns the excludes into a filter pattern: goa_pdb -> %/goa_pdb EXCLUSION_PATTERN = $(foreach excl,$(EXCLUDES),%/$(excl)) # Filter out any path from _ALL_BASE_GROUP_PATHS that matches the exclusion diff --git a/pipeline/requirements.txt b/pipeline/requirements.txt index 77d7f901..f0f9288a 100644 --- a/pipeline/requirements.txt +++ b/pipeline/requirements.txt @@ -1,4 +1,4 @@ PyYAML==3.12 -ontobio==1.0.4 +ontobio==1.1.0 pandas click diff --git a/pipeline/util/group_gaf_id.py b/pipeline/util/group_gaf_id.py new file mode 100644 index 00000000..ae010583 --- /dev/null +++ b/pipeline/util/group_gaf_id.py @@ -0,0 +1,26 @@ +import click +import os +import yaml + + +datasets_dir_path = os.path.normpath(os.path.join(os.path.abspath(__file__), "../../../metadata/datasets")) + +@click.command() +@click.argument("group") +def get_gaf_id(group): + metadata_path = os.path.join(datasets_dir_path, "{}.yaml".format(group)) + try: + with open(metadata_path) as metadata_file: + metadata = yaml.load(metadata_file) + gafs = [] + for dataset in metadata["datasets"]: + if dataset["type"] == "gaf": + gafs.append(dataset["dataset"]) + + click.echo(" ".join(gafs)) + except: + click.echo("metadata yaml not found for '{}' in {}".format(group, datasets_dir_path), err=True) + return + +if __name__ == "__main__": + get_gaf_id()