TIP OF THE WEEK

Knowledge sharing from industry professionals

ENCODE Data Coordination Center, phase 3

Image via: A User's Guide to the Encyclopedia of DNA Elements (ENCODE). doi:10.1371/journal.pbio.1001046.g001 The ENCODE project began many years ago, with a pilot phase, that examined just 1% of the human genome. But this initial exploration helped ... MORE

Human Metabolome Database, HMDB

The HMDB, or Human Metabolome DataBase, is another nice data collection and tools from the Wishart lab. Although we have mentioned it in the past, because of it's emphasis more on small molecules it isn't something we covered in detail. But with this ... MORE

gene.iobio for genome and variation browsing

Twitter erupted recently with some chatter about a new tool that people seemed to really like. The iobio team from the Marth lab had launched a new gene "app" on their iobio framework. Here was some of the response: https://twitter.com/JulieCKiefer/st... MORE

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THE OPENHELIX BLOG

A genomics resources news portal

Friday SNPpets

This week's SNPpets include XKCD for teaching students PSSMs, the 250th eukaryotic genome annotation at NCBI, Galaxy for mobile project checking, missing heritability (not), new dbSNP build, several tool updates and new features, how videos improve science reproducibility,  and a hilarious attempt by Microsoft to help us out in bioinformatics. Seriously. Welcome to our Friday feature link collection: SNPpets. During the week we come across a lot of links and reads that we think are interesting, but don't make it to a blog post. Here they are for your enjoyment... https://twitter.com/marc_rr/st... MORE

What's the Answer? (novel pathways in silico)

This week's highlighted discussion is a different take on pathway and network tools. This is about the design of novel metabolic pathways in silico, not just exploring existing pathways to look for where your favorite genes play roles. Is there free software available for designing metabolic pathways? (self.bioinformatics)submitted 1 month ago by learnedidiot I am interested in designing novel metabolic pathways in silico, and was curious if there is a good software packages that allows for finding the shortest path in terms of enzymes, regardless of species, for a given input to final output? ... MORE

Video Tip of the Week: ENCODE Data Coordination Center, phase 3

Image via: A User's Guide to the Encyclopedia of DNA Elements (ENCODE). doi:10.1371/journal.pbio.1001046.g001 The ENCODE project began many years ago, with a pilot phase, that examined just 1% of the human genome. But this initial exploration helped the consortium participants to iron out some of the directions for later stages--including focusing on specific cell lines, techniques, and technologies in Phase 2. There have been a number of publications that came out from consortium members, but in addition to the participant's papers, a lot of other folks have mined this data for various invest... MORE

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