Tag Archives: VectorBase

Friday SNPpets

Welcome to our Friday feature link dump: 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…

  • A bit of a dust-up at ScienceBlogs as they added a corporate blog (Pepsi writing about nutrition science) and several of the bloggers left or threatened to leave. The Pepsi blog is no more. I hope that’s resolved, ScienceBlogs is an excellent collection of science writing. [Trey]
  • Pathway Tools Workshop 2010 held by the folks from BioCyc announced for October 21-25: http://bioinformatics.ai.sri.com/ptools10/ [Mary]
  • Animal portraiture against a white background. It’s been done before, this time with birds. It always reminds me how amazingly beautiful life can be. [Trey]
  • VectorBase announces that they have moved to the new style Ensembl browser with their current release–Yeah!  If you are interested in “Invertebrate Vectors of Human Pathogens”, this database may have species you want to know about. [Mary]
  • A good discussion about the recent ‘longevity gene’ study and it’s possible flaws by Razib Khan of Gene Expression [Trey]
  • Bandwidth-heavy, but really neat movies of tumor angiogenesis. You can open the Navigator menu to see the various movies listed, or you can migrate around the tumor yourself.  Hat tip to Jill!  [Mary]
  • On the GBrowse mailing list people were looking for examples of GBrowse 2.0 in action. WormBase indicated they are up to that version, and there was another research group with a species I never heard of before that also has it running: Gardnerella vaginalis.  They have compared 2 strains: one from a healthy woman, one suffering from infection. They show divergence, interestingly.  You can check out their recent publication on it from their publication tab.  A nice demonstration of how to use GBrowse for your species of interest. [Mary]

Bioinformatics in the local news

I’m on a few local mailing lists, including the one for MassHighTech.  I was perusing the news today and saw this tidbit:

URI taps De Groot to head new vaccine research center

….The purpose of the new program, called the Institute for Immunology and Informatics, is to create vaccines to prevent AIDS, malaria, tuberculosis, dengue fever and other diseases. Researchers will use cutting-edge bioinformatics tools to speed up creating treatments and cures for these illnesses, stated URI. This includes using immunomics — informatics, genomics and immunology –- to design better vaccines, diagnostics and therapeutics…..

Immunomics. Another -omic.  Just what I needed.

I think this is neat, actually, though.  I would like to keep an eye on what they are doing.  As an undergrad in microbiology I was talked out of infectious diseases as a career–I was told that funding was dissipating and there wasn’t much interest in that anymore.  But that was probably the most memorable course I took.

Oh, and if you find yourself here because you are looking for some resources for infectious disease genomes, I’ll add a few here.  Feel free to add your other favorites.

VBRC: http://athena.bioc.uvic.ca/

IMG: http://img.jgi.doe.gov/

GSID: http://www.gsid.org/

CMR: http://cmr.jcvi.org/

VectorBase: http://www.vectorbase.org/

EUPathDB: http://eupathdb.org/eupathdb/

BREAKING (really):  Court says vaccine not to blame for autism