More ISMB recap.
There was also a bit of a stir at the Open Data and Software BoF which centers around the ISCB's statement about guidelines for open source software (you should provide feedback if you feel strongly about this and are an ISCB member: policy< -at->iscb.org).
The discussion was prompted in part because Mike Eisen
Entries from July 2007
ISCB BoF on open source and open data
Posted on July 30th, 2007 by Jason Stajich · 6 Comments
More ISMB recap.
There was also a bit of a stir at the Open Data and Software BoF which centers around the ISCB's statement about guidelines for open source software (you should provide feedback if you feel strongly about this and are an ISCB member: policy< -at->iscb.org).
The discussion was prompted in part because Mike Eisen
Categories: ismb · news · open-source
ISMB/ECCB 2007 recap
Posted on July 30th, 2007 by Jason Stajich · 2 Comments
Back from ISMB/ECCB and a mountain of things left undone that somehow still need doing ... including a quick entry about what was interesting at the conference.
Categories: evolution · gene regulation · ismb · news · phylogeny
Haunted Woods
Posted on July 5th, 2007 by sharpton · 1 Comment
Eucalyptus is an utilitarian tree, so it's no surprise that several organizations are interested in genetically engineering it. Indeed, its genome sequence is slated for release, which should facilitate a GE market for the species. One company in particular - ArborGen (they have a very interesting mission statement) - is using genetic engineering, cloning and classic hybridization techniques to make a cold tolerant variety.
Categories: cryptococcus · fungi · genome
Genomes on the horizon at JGI
Posted on July 4th, 2007 by Jason Stajich · 1 Comment
Several more fungi are on the docket for sequencing at JGI through their community sequencing program. This includes
- The Dothideomycete leaf streak disease causing fungus Mycosphaerella fijiensis
- Soybean rust Phakopsora pachyrhizi
- The Basidiomycete and jelly fungus Tremella mesenterica proposed by Joe Heitman for use as outgroup to the human pathogen Cryptococcus
- The plant pathogen Cochliobolus heterostrophus proposed by Gillian Turgeon which ironically was already sequenced
Categories: NRPS · aspergillus · basidiomycota · chytridomycota · cryptococcus · dothideomycetes · fungi · genome · genome sequencing · neurospora · pathogens · plant pathogen · rumen · rusts · saccharomyces
More Cocci genomes
Posted on July 4th, 2007 by Jason Stajich · 1 Comment
The Broad Institute has made available additional genomes of strains of Coccidioides immitis and C. posadasii. There are now genome sequences for 4 strains of C. immitis sequenced and 3 strains of C. posadasii including the C735 strain from the JCVI/TIGR. including the reference strain RS that is assembled into 7 supercontigs (there are probably 5 chromosomes) and annotated with ~10,000 genes.
Categories: coccidioides · onygenales