mygene.info
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biothings
MyGene.info: A BioThings API for gene annotations
In https://github.com/biothings/mygene.info/blob/master/src/hub/dataload/sources/clingen/parser.py#L65 of the current clingen parser, we specify five columns to parse out of the downloaded clingen file `key_list = ['DISEASE LABEL', 'DISEASE ID (MONDO)', 'SOP', 'CLASSIFICATION', 'ONLINE REPORT']`...
Currently, mygene.info doc has a static data source table: https://docs.mygene.info/en/latest/doc/data.html#data-sources We should modify it to use the same auto-generated data src table from other API docs, e.g. from MyVariant.info: https://docs.myvariant.info/en/latest/doc/data.html#data-sources...
Orphanet provides gene-disease associations for rare diseases under at CC-BY 4.0 license. See link for "Genes associated with rare diseases" in http://www.orphadata.org/cgi-bin/index.php. Current XML file appears to be continuously updated...
Add CHEMBL.TARGET as a xref field for MyGene.info. { "chembl_target": "CHEMBL1223344" }
Per #103, we can do a fielded search for MGI IDs by simply escaping the colon in the CURIE. This strategy also works for GO IDs, but not MONDO IDs:...
I've noticed three genes where the value for `ensembl.gene` does not begin with `ENSG`: ``` https://mygene.info/v3/gene/263?fields=ensembl ensembl.gene appears to actually be ENSG00000237801 {"_id": "263", "_version": 1, "ensembl": {"gene": "263", "transcript":...
I would like to use the mygene.info api to find human orthologs for a set of entrez gene IDs. However, I noticed that some genes which have ortholog mappings on...
It would be great to be able to pull `associated condition` information from Entrez via mygene.info. For example, for BRAF (https://www.ncbi.nlm.nih.gov/gene/673): Under phenotypes they list conditions from the genetic testing...
We need to update https://docs.mygene.info for new features available at the production API, such as * accept json as the POST content-type * new query parameters available for each endpoint