Big Data Center of Excellence

Today, the NIH announced several new awards under the Big Data To Knowledge (BD2K) initiative. I’m very excited to announce that our group will be participating in one of the BD2K Centers of Excellence. Our awarded proposal is titled “A Community Effort to Translate Protein Data to Knowledge: An Integrated Platform“. It’s a bulky title, but it hits the two points of...
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MyGene.info: we need your support!

It has been almost a year since we released the v2 API of MyGene.info services last July. MyGene.info has grown from an internal service behind BioGPS to a robust, high-performance service provider for anybody to query for up-to-date gene annotation data. Currently, MyGene.info handles ~3 million requests every month, from ~5000 unique IPs. And we are confident that is just a small fraction of...
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NIH Grant proposal for sale!

Last November, Andrew and I submitted an R21 proposal for consideration by the NIH.  Today, we received the summary statement.  Since a lot of work went into writing it, I feel compelled to share it regardless of whether its ever funded (which currently seems like a longshot, but you never know).   Perhaps someone will find a useful idea in there and the world will somehow be...
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The Network of BioThings

I offer an idea, and a proposal… What: We want to structure biological knowledge by annotating BioThings (genes, proteins, mutations, diseases, and drugs) in biomedical research articles. We want to comprehensively annotate the mentions of these BioThings in research articles, and also want to describe the nature of the relationships between these entities. Finally, we want to do it in...
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Gene Wiki progress report

This is the first blog post in a series on our Gene Wiki renewal. More details below. First, let’s recap a bit of history on our Gene Wiki project. We originally proposed the Gene Wiki as one aim of our NIH grant to develop BioGPS, an crowdsourced online portal for aggregating gene-centric information. As part of a Master’s student’s thesis project, we created ~7500 Wikipedia...
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The future of the Gene Wiki

My group recently submitted a grant proposal to the NIH (a “competing renewal”) to continue our work developing the Gene Wiki. In case you haven’t been following, the goal of the Gene Wiki is to create a collaboratively-written, community-reviewed, and continuously-updated review article for every human gene. Currently the Gene Wiki exists in the form of ~10,000 Wikipedia...
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