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change location of MGI GAF file to reflect new preprocess pipeline #2316

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change location of MGI GAF file to reflect new preprocess pipeline #2316

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438f47f
change location of MGI GAF file to reflect new preprocess pipeline
sierra-moxon May 2, 2024
5eb9eaf
fix yaml formatting error causing tests to fail
sierra-moxon May 2, 2024
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21 changes: 2 additions & 19 deletions metadata/datasets/mgi.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -21,28 +21,11 @@ datasets:
id: mgi.gaf
label: "mgi gaf file"
description: "gaf file for mgi from Mouse Genome Informatics"
url: https://current.geneontology.org/annotations/mgi.gaf.gz
url: https://mirror.geneontology.io/mgi-p2go-homology.gaf.gz
type: gaf
dataset: mgi
submitter: mgi
compression: gzip
source: https://release.geneontology.org/2024-03-28/products/upstream_and_raw_data/mgi-src.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: https://current.geneontology.org/annotations/mgi.gpad.gz
type: gpad
dataset: mgi
submitter: mgi
compression: gzip
source: http://www.informatics.jax.org/downloads/reports/mgi.gpad.gz
source: https://mirror.geneontology.io/mgi-p2go-homology.gaf.gz
entity_type:
status: active
species_code: Mmus
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12 changes: 6 additions & 6 deletions metadata/gorefs.yaml
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Expand Up @@ -35,12 +35,12 @@
- id: GO_REF:0000003
title: Gene Ontology annotation based on Enzyme Commission mapping
description: |-
In UniProt, proteins with enzymatic activities have traditionally been annotated using reference vocabularies such as the hierarchical enzyme classification of the Enzyme Nomenclature Committee of the IUBMB
(often referred to as Enzyme Commission or EC numbers; https://enzyme.expasy.org/). EC numbers are manually curated in Swiss-Prot ('UniProt Reviewed') entries and added automatically to
TrEMBL ('UniProt Uneviewed') entries. A mapping between EC numbers and GO Molecular Function terms is maintainted by GO editors. UniProt entries assigned with an EC number
with a GO mapping are automatically annotated with the correponding GO term, as described in PMID:30395331. GO annotations using this method receive the evidence code
Inferred from Electronic Annotation (IEA). This method has been evaluated at up to 100% accurate (Camon et. al. 2005). The EC2GO mapping file is available at
http://current.geneontology.org/ontology/external2go/ec2go.
In UniProt, proteins with enzymatic activities have traditionally been annotated using reference vocabularies such as the hierarchical enzyme classification of the Enzyme Nomenclature Committee of the IUBMB
(often referred to as Enzyme Commission or EC numbers; https://enzyme.expasy.org/). EC numbers are manually curated in Swiss-Prot ('UniProt Reviewed') entries and added automatically to
TrEMBL ('UniProt Uneviewed') entries. A mapping between EC numbers and GO Molecular Function terms is maintainted by GO editors. UniProt entries assigned with an EC number
with a GO mapping are automatically annotated with the correponding GO term, as described in PMID:30395331. GO annotations using this method receive the evidence code
Inferred from Electronic Annotation (IEA). This method has been evaluated at up to 100% accurate (Camon et. al. 2005). The EC2GO mapping file is available at
http://current.geneontology.org/ontology/external2go/ec2go.
alt_id:
- GO_REF:0000005
authors: GO Central curators
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