Omics Pipe- computational framework for reproducible multi-omics data analysis

As mentioned on Monday, the researchers at the Su lab have been working diligently on a paper to introduce their new computational framework for reproducible multi-omics data analysis.  Advancements in sequencing technologies have made sequencing cheaper and more efficient, but this means that researchers need a way to handle all that data.  Different groups have generated a variety of tools for...
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Only a few days left to submit a manuscript for Pacific Symposium on Biocomputing

The deadline has been extended to Aug 4th which is in less than 5 days! The 2015 Pacific Symposium on Biocomputing will be held from Jan 4-8 on Kohala Coast in Hawaii! Andrew and Ben (together with collaborators Robert and Zhiyong at NCBI) are organizing the session on Crowdsourcing and Mining Crowd Data. For the session to be remotely decent, they need manuscript submissions. Submissions will...
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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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Recruiting postdocs in earnest!

There is currently no higher priority for our group right now than recruiting 2-3 new postdoctoral associates to join the lab. We are lucky enough to have very stable funding over the next few years, so these are already-funded positions waiting to be filled ASAP. I have posted two “traditional” job ads here and here, but these are meant to give a flavor of the type of person we are...
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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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Quick ID mapping using MyGene.info

ID mapping is a very common, and often not fun, task for every bioinformatician. Suppose you have a list of gene symbols or reporter ids from an upstream analysis, and then your next analysis requires the use of gene IDs (e.g. Entrez gene IDs or Ensembl gene IDs). Converting from one symbol/identifier to another is a conceptually simple but often tedious process. Websites that pay for articles...
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