From the UCSC Genome Browser announcement mailing list: The UCSC Cancer Genomics group has recently remodeled the interface of their Cancer Genomics Browser (https://genome-cancer.ucsc.edu/) to make it easier to navigate and more intuitive to display, investigate, and analyze cancer genomics data and associated clinical information. This tool provides access to many types of information —- [...]
This week’s video tip of the week introduces you to Enzyme Portal, an interface to explore data about these important proteins, from the EBI. In the video, Jenny Cham–one of the authors of the paper below–takes you through the main features of their newly designed resource. I learned about the new effort from this blog [...]
This is a paper I’ve been waiting for: the analysis of the HeLa genome. I was aware of a lot of issues with the cell lines and missing or duplicated regions from the ENCODE data that was coming along some time ago: Mining the “big data” is…fascinating. And necessary. People may be familiar with HeLa [...]
Hey folks–if you are in the field of bioinformatics you know how important it is to get feedback about tools, so that the tool providers can set the directions for development of new features. And of course to demonstrate to their grant agencies how much people love them. So in the interest of community spirit, [...]
The ENCODE discussion on Radio 4 earlier – fast forward to ~3mins in bbc.in/12ek0D1 — Thomas Keane (@drtkeane) 28. Februar 2013 Ewan Birney and Chris Ponting talk about the “function” distinctions on Quentin Cooper’s “Material World” show. It’s on the first segment, lasts about 13 minutes.
While I was on the road last week–ironically to do workshops including one on ENCODE data in the UCSC Genome Browser, a conflama erupted over a new paper that was published essentially spanking the ENCODE team for some of the claims they made. Some of the first notes I saw: Wow – brutal (IMO excessive) [...]
Hey folks–a public service announcement: I have just been made aware of the GMOD community survey that’s running right now, through March 1. The folks who support the GMOD tools and projects are interested in your experience with the tools, and the good features and the “needs improvement” sort of things about them. They are [...]
FYI, ICYMI: RT @GenomeBrowser: Power will be out on UCSC campus Dec 27-28. We will endeavor to keep the Genome Browser running. Please bear with us. Just in case, here are the mirrors listed on their site: UCSC supports and maintains the following mirror site that may be used during network or power outages on [...]
VectorBase is a site dedicated to collecting the genomics data around a number of invertebrate vectors that carry human pathogens. These may not be the sexiest species going–but they have major impact on human health. See their list of species here. You need kissing bug data–it transmits Chagas–for your research? Find it here. Mosquito species [...]
Are your ready for the Hadron Collider of biology? That’s what the 3D Virtual Cell project claims to be aiming at. I’ve been becoming more aware of the directions around the virtual biology projects this year, with things like the 3D Worm, the Virtual Cell, GenoCAD, and more synthetic biology. But the 3D Virtual Cell [...]
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