Yes, Ecology can improve Genomics
Posted on October 5th, 2007 by sharpton · 1 Comment
Categories: bioinformatics · comparative · functional · gene function · gene knockout · genome · genome annotation · genome sequencing · molecular evolution · saccharomyces · yeast
Fusarium graminearum genome published
Posted on September 8th, 2007 by Jason Stajich · 1 Comment
The genome of the wheat and cereal pathogen Fusarium graminearum was published in Science this week in an article entitled "The Fusarium graminearum Genome Reveals a Link Between Localized Polymorphism and Pathogen Specializationtion". The project was a collaboration of many different Fusarium research groups.
Categories: RIP · filamentous · fusarium · genome · genome annotation · genome sequencing · plant pathogen
Postia annotation
Posted on August 21st, 2007 by Jason Stajich · No Comments
Not sure when this went live but the Postia placenta annotation is available on the JGI site. 17k genes are predicted which is in the neighborhood of Laccaria.
Categories: genome · genome annotation
Yeast genome: Known knowns, and known unknowns
Posted on May 20th, 2007 by Jason Stajich · 1 Comment
Categories: gene function · genome annotation · saccharomyces · yeast
Orthology detection software
Posted on April 19th, 2007 by Jason Stajich · 1 Comment
A paper in PLoS One, Assessing Performance of Orthology Detection Strategies Applied to Eukaryotic Genomes, reports a new approach to assess the performance of automated orthology detection. These authors also wrote the OrthoMCL (2006 DB paper, 2003 algorithm paper) which uses MCL to build orthologous gene families.
Categories: bioinformatics · comparative · genome annotation · methods
That was a lot of work
Posted on April 3rd, 2007 by sharpton · No Comments
Categories: functional · fungi · gene function · genome · genome annotation · magnaporthe · plant pathogen
SGD community annotation
Posted on March 13th, 2007 by Jason Stajich · No Comments
The Saccharomyces Genome Database has deployed a wiki for gene annotation from the community. This should be an interesting experiment in how information can flow from the community into these databases.
Categories: database · genome annotation · saccharomyces · wiki
Approaching 100% coverage for GO assignments in S.pombe
Posted on March 4th, 2007 by Jason Stajich · 2 Comments
Categories: functional · genome annotation · s.pombe
Wikis for genome (re)annotation
Posted on February 12th, 2007 by Jason Stajich · 5 Comments
Categories: bioinformatics · database · genome annotation · wiki
