Prosnp

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(Data from "Consistent negative selection constraints at protein-coding sites across broad evolutionary time-scales" by Khurana et al)
 
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==Data from "Consistent negative selection constraints at protein-coding sites across broad evolutionary time-scales" by Khurana et al==
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==Data from "Comparing selective pressure at protein-coding sites across broad evolutionary time-scales" by Khurana et al==
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   Omega (dN/dS) values for all coding sites in Gencodev3b computed from 28 whole-genome vertebrate alignments using PAML.
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   Omega (dN/dS) values for all coding sites in Gencodev3b computed from 12 whole-genome vertebrate alignments using PAML.
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   [http://archive.gersteinlab.org/prosnp/all_omega omega values for all codons]
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   [http://archive.gersteinlab.org/prosnp/all_omega 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)
   Omega values for sites identified as being under positive selection in humans relative to vertebrates (omega > 1 and probability (omega>1) > 0.5)
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   [http://archive.gersteinlab.org/prosnp/omega_pos_sel Codons under positive selection]
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   [http://archive.gersteinlab.org/prosnp/omega_pos_sel Codons_under_positive_selection]
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  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
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  in 1000 Genomes Pilot 1 data
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  [http://archive.gersteinlab.org/prosnp/pos_sel_snps Pos_sel_SNP sites]
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  Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments
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  [http://archive.gersteinlab.org/prosnp/gap_score_1kg 1KG-gap_scores] 
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  Gap_scores for disease-causing deletions from HGMD (HGMD-DELs) computed from 28 whole-genome vertebrate alignments
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  [http://archive.gersteinlab.org/prosnp/gap_score_hgmd HGMD-gap_scores] 
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  Structural conservation scores for non-synonymous SNPs from 1000 Genomes Pilot 1 data (1KG-SNPs)
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  [http://archive.gersteinlab.org/prosnp/str_cons_1kg 1KG-str_cons_scores] 
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  Structural conservation scores for disease-causing non-synonymous single nucleotide variants from HGMD (HGMD-SNVs)
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  [http://archive.gersteinlab.org/prosnp/str_cons_hgmd HGMD-str_cons_scores]

Latest revision as of 02:26, 7 August 2011

Data from "Comparing selective pressure 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_scores  
 Structural conservation scores for disease-causing non-synonymous single nucleotide variants from HGMD (HGMD-SNVs)
 HGMD-str_cons_scores
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