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pgaudet authored Oct 29, 2024

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@@ -42,30 +42,30 @@ subset: goslim_generic
+ The files available below for download are generated by script from that file.
+ [GO subsets](/docs/go-subset-guide/) (slims) are available in OBO. OWL as as well as [JSON](https://github.com/geneontology/obographs/){:target="blank"}; [JSON](https://github.com/geneontology/obographs/){:target="blank"} files should be loaded with [ontobio](https://ontobio.readthedocs.io/en/latest/){:target="blank"}, although they can be opened with any text editor.

|**Subset name**|**Maintainer**|**File name**|**OBO format**|**OWL format**|**json format**|
|------------------|-------------|-------------|-------------|------------|-------------|
|***A*lliance of *G*enome *R*esources subset**|Developed by GO Consortium for the [Alliance of Genomes Resources](https://www.alliancegenome.org/){:target="blank"} |goslim_agr |[obo](https://current.geneontology.org/ontology/subsets/goslim_agr.obo) |[owl](https://current.geneontology.org/ontology/subsets/goslim_agr.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_agr.json){:target="blank"} |
|**Generic GO subset**|[GO Consortium](https://help.geneontology.org/){:target="blank"} |goslim_generic|[obo](https://current.geneontology.org/ontology/subsets/goslim_generic.obo)| [owl](https://current.geneontology.org/ontology/subsets/goslim_generic.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_generic.json){:target="blank"} |
|*__Aspergillus__* **subset**|[_Aspergillus_ Genome Data](http://www.aspgd.org/){:target="blank"} |goslim_aspergillus|[obo](https://current.geneontology.org/ontology/subsets/goslim_aspergillus.obo) |[owl](https://current.geneontology.org/ontology/subsets/goslim_aspergillus.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_aspergillus.json){:target="blank"} |
|*__Candida albicans__* **subset**|[_Candida_ Genome Database](http://www.candidagenome.org/){:target="blank"} |goslim_candida|[obo](https://current.geneontology.org/ontology/subsets/goslim_candida.obo)|[owl](https://current.geneontology.org/ontology/subsets/goslim_candida.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_candida.json){:target="blank"} |
|*__Drosophila__* **subset**|[FlyBase](http://www.flybase.org/){:target="blank"} |goslim_drosophila|[obo](https://current.geneontology.org/ontology/subsets/goslim_drosophila.obo)|[owl](https://current.geneontology.org/ontology/subsets/goslim_drosophila.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_drosophila.json){:target="blank"} |
|**Chembl Drug Target subset**|[ChEMBL](https://www.ebi.ac.uk/chembl/){:target="blank"} |goslim_chembl|[obo](https://current.geneontology.org/ontology/subsets/goslim_chembl.obo) |[owl](https://current.geneontology.org/ontology/subsets/goslim_chembl.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_chembl.json){:target="blank"} |
|**Metagenomics subset**|[InterPro](http://www.ebi.ac.uk/interpro/){:target="blank"} group|goslim_metagenomic|[obo](https://current.geneontology.org/ontology/subsets/goslim_metagenomics.obo) | [owl](https://current.geneontology.org/ontology/subsets/goslim_metagenomics.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_metagenomics.json){:target="blank"} |
|**Mouse GO subset**|[Mouse Genome Informatics](http://www.informatics.jax.org/){:target="blank"} |goslim_mouse|[obo](https://current.geneontology.org/ontology/subsets/goslim_mouse.obo) |[owl](https://current.geneontology.org/ontology/subsets/goslim_mouse.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_mouse.json){:target="blank"} |
|**Plant subset**|[The _Arabidopsis_ Information Resource](https://www.arabidopsis.org/){:target="blank"} |goslim_plant|[obo](https://current.geneontology.org/ontology/subsets/goslim_plant.obo) |[owl](https://current.geneontology.org/ontology/subsets/goslim_plant.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_plant.json){:target="blank"} |
|**Prokaryote subset**|[GO Consortium](https://help.geneontology.org/){:target="blank"} |goslim_prokaryote|[obo](https://current.geneontology.org/ontology/subsets/goslim_prokaryote.obo) |[owl](https://current.geneontology.org/ontology/subsets/goslim_prokaryote.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_prokaryote.json){:target="blank"} |
|**Protein Information Resource subset**|[PIR](https://proteininformationresource.org/){:target="blank"} |goslim_pir|[obo](https://current.geneontology.org/ontology/subsets/goslim_pir.obo) |[owl](https://current.geneontology.org/ontology/subsets/goslim_pir.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_pir.json){:target="blank"} |
|*__Schizosaccharomyces pombe__* **subset**|[PomBase](https://www.pombase.org/){:target="blank"} |goslim_pombe|[obo](https://current.geneontology.org/ontology/subsets/goslim_pombe.obo) |[owl](https://current.geneontology.org/ontology/subsets/goslim_pombe.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_pombe.json){:target="blank"} |
|**Yeast subset**|[_Saccharomyces_ Genome Database](https://www.yeastgenome.org/){:target="blank"} |goslim_yeast|[obo](https://current.geneontology.org/ontology/subsets/goslim_yeast.obo) |[owl](https://current.geneontology.org/ontology/subsets/goslim_yeast.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_yeast.json){:target="blank"} |
|**Subset name**|**Maintainer**|**File name**|**OBO format**|**OWL format**|**json format**|**tsv format**|
|------------------|-------------|-------------|-------------|------------|-------------|-------------|
|***A*lliance of *G*enome *R*esources subset**|Developed by GO Consortium for the [Alliance of Genomes Resources](https://www.alliancegenome.org/){:target="blank"} |goslim_agr |[obo](https://current.geneontology.org/ontology/subsets/goslim_agr.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_agr.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_agr.json){:target="blank"} | [tsv](https://current.geneontology.org/ontology/subsets/goslim_agr.tsv){:target="blank"} |
|**Generic GO subset**|[GO Consortium](https://help.geneontology.org/){:target="blank"} |goslim_generic|[obo](https://current.geneontology.org/ontology/subsets/goslim_generic.obo){:target="blank"} | [owl](https://current.geneontology.org/ontology/subsets/goslim_generic.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_generic.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_generic.tsv){:target="blank"} |
|*__Aspergillus__* **subset**|[_Aspergillus_ Genome Data](http://www.aspgd.org/){:target="blank"} |goslim_aspergillus|[obo](https://current.geneontology.org/ontology/subsets/goslim_aspergillus.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_aspergillus.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_aspergillus.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_aspergillus.tsv){:target="blank"} |
|*__Candida albicans__* **subset**|[_Candida_ Genome Database](http://www.candidagenome.org/){:target="blank"} |goslim_candida|[obo](https://current.geneontology.org/ontology/subsets/goslim_candida.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_candida.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_candida.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_candida.tsv){:target="blank"} |
|*__Drosophila__* **subset**|[FlyBase](http://www.flybase.org/){:target="blank"} |goslim_drosophila|[obo](https://current.geneontology.org/ontology/subsets/goslim_drosophila.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_drosophila.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_drosophila.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_drosophila.tsv){:target="blank"} |
|**Chembl Drug Target subset**|[ChEMBL](https://www.ebi.ac.uk/chembl/){:target="blank"} |goslim_chembl|[obo](https://current.geneontology.org/ontology/subsets/goslim_chembl.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_chembl.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_chembl.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_chembl.tsv){:target="blank"} |
|**Metagenomics subset**|[InterPro](http://www.ebi.ac.uk/interpro/){:target="blank"} group|goslim_metagenomic|[obo](https://current.geneontology.org/ontology/subsets/goslim_metagenomics.obo){:target="blank"} | [owl](https://current.geneontology.org/ontology/subsets/goslim_metagenomics.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_metagenomics.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_metagenomics.tsv){:target="blank"} |
|**Mouse GO subset**|[Mouse Genome Informatics](http://www.informatics.jax.org/){:target="blank"} |goslim_mouse|[obo](https://current.geneontology.org/ontology/subsets/goslim_mouse.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_mouse.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_mouse.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_mouse.tsv){:target="blank"} |
|**Plant subset**|[The _Arabidopsis_ Information Resource](https://www.arabidopsis.org/){:target="blank"} |goslim_plant|[obo](https://current.geneontology.org/ontology/subsets/goslim_plant.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_plant.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_plant.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_plant.tsv){:target="blank"} |
|**Prokaryote subset**|[GO Consortium](https://help.geneontology.org/){:target="blank"} |goslim_prokaryote|[obo](https://current.geneontology.org/ontology/subsets/goslim_prokaryote.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_prokaryote.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_prokaryote.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_prokaryote.tsv){:target="blank"} |
|**Protein Information Resource subset**|[PIR](https://proteininformationresource.org/){:target="blank"} |goslim_pir|[obo](https://current.geneontology.org/ontology/subsets/goslim_pir.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_pir.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_pir.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_pir.tsv){:target="blank"} |
|*__Schizosaccharomyces pombe__* **subset**|[PomBase](https://www.pombase.org/){:target="blank"} |goslim_pombe|[obo](https://current.geneontology.org/ontology/subsets/goslim_pombe.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_pombe.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_pombe.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_pombe.tsv){:target="blank"} |
|**Yeast subset**|[_Saccharomyces_ Genome Database](https://www.yeastgenome.org/){:target="blank"} |goslim_yeast|[obo](https://current.geneontology.org/ontology/subsets/goslim_yeast.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/goslim_yeast.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/goslim_yeast.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/goslim_yeast.tsv){:target="blank"} |

### GO "*__anti-slims__*"

For internal checking purposes, GO maintains two "anti-slims", terms to which annotations should not be made. "Anti-slim" terms should never be used when creating a subset, and terms that are obsoleted are removed from subsets.

|**Subset name**|**Usage** |**File name** |**OBO format** |**OWL format** |**json format** |**tsv format***
|------------------|----------|----------|----------|----------|----------|----------|
|**Do not annotate**|The set of high level terms that are useful for grouping, but should have no direct annotations| gocheck_do_not_annotate |[obo](https://current.geneontology.org/ontology/subsets/gocheck_do_not_annotate.obo)| [owl](https://current.geneontology.org/ontology/subsets/gocheck_do_not_annotate.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/gocheck_do_not_annotate.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/gocheck_do_not_annotate.tsv){:target="blank"}
|**Obsoletion candidate**|GO terms planned for obsoletion. This subsets serves as an early warning system both for users and curators |[obo](https://current.geneontology.org/ontology/subsets/gocheck_obsoletion_candidate.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/gocheck_obsoletion_candidate.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/gocheck_obsoletion_candidate.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/gocheck_obsoletion_candidate.tsv){:target="blank"}
|**Do not annotate**|The set of high level terms that are useful for grouping, but should have no direct annotations| gocheck_do_not_annotate |[obo](https://current.geneontology.org/ontology/subsets/gocheck_do_not_annotate.obo){:target="blank"} | [owl](https://current.geneontology.org/ontology/subsets/gocheck_do_not_annotate.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/gocheck_do_not_annotate.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/gocheck_do_not_annotate.tsv){:target="blank"}
|**Obsoletion candidate**|GO terms planned for obsoletion. This subsets serves as an early warning system both for users and curators | gocheck_obsoletion_candidate | [obo](https://current.geneontology.org/ontology/subsets/gocheck_obsoletion_candidate.obo){:target="blank"} |[owl](https://current.geneontology.org/ontology/subsets/gocheck_obsoletion_candidate.owl){:target="blank"} |[json](https://current.geneontology.org/ontology/subsets/gocheck_obsoletion_candidate.json){:target="blank"} |[tsv](https://current.geneontology.org/ontology/subsets/gocheck_obsoletion_candidate.tsv){:target="blank"}


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