This paper just came up in my feed reader last night: High-throughput identification of genetic interactions in HIV-1 which is a review of: A systems analysis of mutational effects in HIV-1 protease and reverse transcriptase, Both are out of Nature Genetics and run by group in CA.
They have analyzed the viral fitness of mutations from more than 70,000 clinical sequences of RT and PR. Fitness was measured by replication capacity in their in-vitro study. The experiments were performed by placing this region within a well defined test vector (NL4-3). So I will be able to examine linkage breakage between all pairwise interactions which include either RT or PR.
I've already started to write code for measuring these "linkage-breaks" from arbitrary sequence segments. I've submitted the data request, hopefully they won't be greedy and they'll actually send me something quickly!
It seems that they do some sort of "encryption" to hide patient identities ... I may have to do some finnoodling to get it working, hopefully it won't be much.
No comments:
Post a Comment