Question: Suggestions On "Versioned" Bioinformatics Data For An Example Proper Restful, Discoverable Api
2
gravatar for Delinquentme
8.5 years ago by
Delinquentme200
Delinquentme200 wrote:

Hey all,

I've built out the API / user system for a web application which I'm basically making as a study for how to properly implement APIs.

stack: -django -postgresql

Specifically I'm after data which is versioned as this is one feature I'm displaying.

Ideas: - HG19 vrs HG18 ... its HUGE though... suggestions on useful subsets? - genes across species

Additionally this functionality will implement extremely simple POST and GET operations ... So I could definitely implement a quick submission... might be fun to have a 30 second exercise in which someone could push up data...

api database • 1.3k views
ADD COMMENTlink written 8.5 years ago by Delinquentme200
2

MANY data sources are versioned. RefSeq, dbSNP, Ensembl, COSMIC.... I'm not sure what you're after here.

ADD REPLYlink written 8.5 years ago by Sean Davis26k

Versioning different assembly and annotation versions (a la hg18 vs hg19) is quite different than versioning incremental updates within a single assembly and annotation release.

ADD REPLYlink written 8.5 years ago by Daniel Standage3.9k
2
gravatar for Pierre Lindenbaum
8.5 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum129k wrote:

Take your data from the various available DAS servers here: http://www.dasregistry.org/

ADD COMMENTlink written 8.5 years ago by Pierre Lindenbaum129k
1
gravatar for Giovanni M Dall'Olio
8.5 years ago by
London, UK
Giovanni M Dall'Olio27k wrote:

Gene Ontology is versioned and available from SourceForge. http://geneontology.cvs.sourceforge.net/geneontology/

It may be a good example because most people don't know that GeneOntology is versioned. I have seen some papers and posters that use GeneOntology, but don't cite which version has been used. Contrary to what people thinkg, GO is updated very frequently and the bug tracker is very active.

ADD COMMENTlink written 8.5 years ago by Giovanni M Dall'Olio27k
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