Supplementary data: Patterns of positive selection in six mammalian genomes
This web page presents the data sets accompanying manuscript:
C. Kosiol, T. Vinar, R.R. da Fonseca, M.J. Hubisz, C.D. Bustamante, R. Nielsen, A. Siepel: Patterns of positive selection in six mammalian genomes. PLoS Genetics, 2008.
All files are tab separated text files unless otherwise noted.
Genes, orthologs, and alignments
- Gene definitions (16,529 genes)
- GO categories and PANTHER categories
- List of orthologs for each gene and alignment depth
- Multiple sequence alignments (PHYLIP format, one file per gene, tar/gzipped)
Overview of PSGs
The following HTML table contains an overview of all 544 PSGs identified under at least one of the likelihood ratio tests A-I. The table also includes gene descriptions (mouse over the gene name) and links to a genome browser track.
The table shows nominal P-values for each of the tests performed for each of the 544 genes. FDR significant values are shown in boldface.
A genome browser track summarizing the results of the likelihood ratio tests is available in the UCSC Genome Browser (located under category "Genes and Gene Prediction Tracks").
Likelihood ratio tests - raw results
- A: LRT all branches
- B: LRT primate branch
- C: LRT primate clade
- D: LRT rodent branch
- E: LRT rodent clade
- F: LRT human lineage
- G: LRT chimp lineage
- H: LRT hominid
- I: LRT macaque lineage
Contact: Adam Siepel, Siepel Lab, Cold Spring Harbor Laboratory,
Cold Spring Harbor, NY 11724
Last update: 08/16/2008