A look back at 2016 for BioGPS

BioGPS opened 2016 with a publication in Nucleic Acids Research, right after the New Year holiday. Throughout the year, new designs for the site were being created, reviewed, adjusted, reviewed, adjusted, and more review/adjustments in anticipation of a site redesign for 2017. A Plugin registration Blitz was held in March and April; followed by a Plugin Review Blitz in May. The BioGPS spotlight...
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MyGene.info 2016 Year-end review

It has been a busy year for the MyGene.info team as they worked to apply the lessons they learned in building MyGene.info and MyVariant.info towards a BioThings framework, and the generation of additional services. At this rate, 2017 is on track to be a very interesting year. In 2016, aside from all the BioThings improvements happening behind-the-scenes, MyGene.info saw a number of improvements...
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BioGPS Spotlight on WormBase and WormMine

If worms are your model organism of choice, you’re probably already familiar with WormBase. WormBase was founded in 2000 and is a multi-institutional consortium led by Paul Sternberg of the California Institute of Technology (CalTech), Paul Kersey of the European Bioinformatics Institute (EBI), Matt Berriman of the Wellcome Trust Sanger Institute, and Lincoln Stein of the Ontario Institute for...
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Functional gene constraint scores from ExAC now available from MyGene.info

With the publication of a new paper in Nature, the Exome Aggregation Consortium (ExAC) has received some much deserved attention on their open data/open access practice. ExAC variant annotation data has been available for awhile through MyVariant.info; however, their functional gene constraint data doesn't fit well into MyVariant.info model. Speaking of ExAC annotations in MyVariant.info, check...
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BioGPS Spotlight on ZFIN and ZebraFishMine

The Zebrafish Model Organism Database (ZFIN) has served the scientific community for over twenty years. As with the Rat Genome Database, which was previously featured in our Spotlight series, ZFIN also manages an InterMine-based resource called ZebrafishMine. The ZFIN team is based at University of Oregon, and their data curation manager, Doug Howe, has kindly answered our questions about this...
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New release: MyGene.info Python client updated to v3.0.0

A few weeks ago, we released MyGene.info v3 API, which brings changes to exon field data structure and added accession version numbers to refseq and accession fields, along with some other back-compatible changes. Our Python client mygene module is now updated to use our v3 API as the default. We increased its version from v2.3.0 to v3.0.0, just to match the underlying API version. The mygene...
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