Prosnp

From GersteinInfo

(Difference between revisions)
Jump to: navigation, search
(Data from "Consistent negative selection constraints at protein-coding sites across broad evolutionary time-scales" by Khurana et al)
(Data from "Consistent negative selection constraints at protein-coding sites across broad evolutionary time-scales" by Khurana et al)
Line 20: Line 20:
   Structural conservation scores for non-synonymous SNPs from 1000 Genomes Pilot 1 data (1KG-SNPs)
   Structural conservation scores for non-synonymous SNPs from 1000 Genomes Pilot 1 data (1KG-SNPs)
   [[media:SuppTable5.xlsx|1KG-str_cons]]
   [[media:SuppTable5.xlsx|1KG-str_cons]]
 +
 +
  Structural conservation scores for disease-causing non-synonymous single nucleotide variants from HGMD (HGMD-SNVs)
 +
  [[media:SuppTable6.xlsx|HGMD-str_cons]]

Revision as of 20:42, 3 August 2011

Data from "Consistent negative selection constraints at protein-coding sites across broad evolutionary time-scales" by Khurana et al

 Omega (dN/dS) values for all coding sites in Gencodev3b computed from 12 whole-genome vertebrate alignments using PAML.
 omega_values_for_all_codons
 Omega values for sites identified as being under positive selection in humans relative to vertebrates (omega > 1 and probability (omega>1) > 0.5)
 Codons_under_positive_selection
 Allele frequencies of non-synonymous SNPs at sites that are identified as being under positive selection in humans relative to vertebrates and are polymorphic amongst humans 
 in 1000 Genomes Pilot 1 data
 Pos_sel_SNP sites
 
 Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments
 1KG-gap_scores
 Gap_scores for disease-causing deletions from HGMD (HGMD-DELs) computed from 28 whole-genome vertebrate alignments
 HGMD-gap_scores
 Structural conservation scores for non-synonymous SNPs from 1000 Genomes Pilot 1 data (1KG-SNPs)
 1KG-str_cons
 Structural conservation scores for disease-causing non-synonymous single nucleotide variants from HGMD (HGMD-SNVs)
 HGMD-str_cons
Personal tools