Some links on "ortholog conjecture" paper and critiques of it

Recently a paper by Matt Hahn was published in PLoS Computational Biology entitled “Testing the ortholog conjecture with comparative functional genomic data from mammals.”  The paper created a bit of a stir as some aspects of it call into question some of the standard assumptions made in comparative genomic analysis.

I alas do not have time to go into all the details but fortunately others have tackled this and I am posting some links here:

• Comments at Faculty of 1000 (currently available for free but not sure for how long).
• Of mice and men and meta analyses (Richard Grant discussing Michael Galperin’s F1000 dissent)
• The ‘Ortholog Conjecture’ | The Daily Scan | GenomeWeb
• Of Mice and Men or: Revisiting the Ortholog Conjecture (Iddo Friedberg)
• Friendfeed discussion: http://friendfeed.com/erickma… (see below)

http://friendfeed.com/erickmatsen/f90bd2c6/emergentnexus-i-think-what-you-were-talking?embed=1

Will try to post my own comments soon.  I note – I am skeptical of their conclusions but still going through the paper to understand everything before commenting in more detail.

Author: Jonathan Eisen

I am an evolutionary biologist and a Professor at U. C. Davis. (see my lab site here). My research focuses on the origin of novelty (how new processes and functions originate). To study this I focus on sequencing and analyzing genomes of organisms, especially microbes and using phylogenomic analysis View all posts by Jonathan Eisen