Prosnp - Revision history

Public at 02:26, 7 August 2011

2011-08-07T02:26:49Z

← Older revision		Revision as of 02:26, 7 August 2011
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	[http://archive.gersteinlab.org/prosnp/pos_sel_snps Pos_sel_SNP sites]		[http://archive.gersteinlab.org/prosnp/pos_sel_snps Pos_sel_SNP sites]


	Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments		Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments
	[http://archive.gersteinlab.org/prosnp/gap_score_1kg 1KG-gap_scores]		[http://archive.gersteinlab.org/prosnp/gap_score_1kg 1KG-gap_scores]

Public: /* Data from "Comparing selective pressure at protein-coding sites across broad evolutionary time-scales" by Khurana et al */

2011-08-07T02:25:38Z

Data from "Comparing selective pressure at protein-coding sites across broad evolutionary time-scales" by Khurana et al

← Older revision		Revision as of 02:25, 7 August 2011
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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		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		in 1000 Genomes Pilot 1 data
	[~~[media~~:~~SuppTable2~~.~~xlsx\|~~Pos_sel_SNP sites]]		[http://archive.gersteinlab.org/prosnp/pos_sel_snps Pos_sel_SNP sites]


	Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments		Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments
	[~~[media~~:~~SuppTable3~~.~~xlsx\|~~1KG-gap_scores]]		[http://archive.gersteinlab.org/prosnp/gap_score_1kg 1KG-gap_scores]

	Gap_scores for disease-causing deletions from HGMD (HGMD-DELs) computed from 28 whole-genome vertebrate alignments		Gap_scores for disease-causing deletions from HGMD (HGMD-DELs) computed from 28 whole-genome vertebrate alignments
	[~~[media~~:~~SuppTable4~~.~~xlsx\|~~HGMD-gap_scores]]		[http://archive.gersteinlab.org/prosnp/gap_score_hgmd HGMD-gap_scores]

	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]~~]		[http://archive.gersteinlab.org/prosnp/str_cons_1kg 1KG-str_cons_scores]

	Structural conservation scores for disease-causing non-synonymous single nucleotide variants from HGMD (HGMD-SNVs)		Structural conservation scores for disease-causing non-synonymous single nucleotide variants from HGMD (HGMD-SNVs)
	[~~[media~~:~~SuppTable6~~.~~xlsx\|~~HGMD-~~str_cons]~~]		[http://archive.gersteinlab.org/prosnp/str_cons_hgmd HGMD-str_cons_scores]

Public at 18:49, 4 August 2011

2011-08-04T18:49:42Z

← Older revision		Revision as of 18:49, 4 August 2011
Line 1:		Line 1:
	==Data from "~~Consistent negative selection constraints~~ at protein-coding sites across broad evolutionary time-scales" by Khurana et al==		==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 (dN/dS) values for all coding sites in Gencodev3b computed from 12 whole-genome vertebrate alignments using PAML.

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

2011-08-03T20:42:13Z

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

← Older revision		Revision as of 20:42, 3 August 2011
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]]

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

2011-08-03T20:37:26Z

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

← Older revision		Revision as of 20:37, 3 August 2011
Line 17:		Line 17:
	Gap_scores for disease-causing deletions from HGMD (HGMD-DELs) computed from 28 whole-genome vertebrate alignments		Gap_scores for disease-causing deletions from HGMD (HGMD-DELs) computed from 28 whole-genome vertebrate alignments
	[[media:SuppTable4.xlsx\|HGMD-gap_scores]]		[[media:SuppTable4.xlsx\|HGMD-gap_scores]]

			Structural conservation scores for non-synonymous SNPs from 1000 Genomes Pilot 1 data (1KG-SNPs)
			[[media:SuppTable5.xlsx\|1KG-str_cons]]

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

2011-08-03T20:35:58Z

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

← Older revision		Revision as of 20:35, 3 August 2011
Line 14:		Line 14:
	Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments		Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments
	[[media:SuppTable3.xlsx\|1KG-gap_scores]]		[[media:SuppTable3.xlsx\|1KG-gap_scores]]

			Gap_scores for disease-causing deletions from HGMD (HGMD-DELs) computed from 28 whole-genome vertebrate alignments
			[[media:SuppTable4.xlsx\|HGMD-gap_scores]]

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

2011-08-03T20:34:36Z

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

← Older revision		Revision as of 20:34, 3 August 2011
Line 2:		Line 2:

	Omega (dN/dS) values for all coding sites in Gencodev3b computed from 12 whole-genome vertebrate alignments using PAML.		Omega (dN/dS) values for all coding sites in Gencodev3b computed from 12 whole-genome vertebrate alignments using PAML.
	[http://archive.gersteinlab.org/prosnp/all_omega ~~omega values for all codons~~]		[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)
	[http://archive.gersteinlab.org/prosnp/omega_pos_sel ~~Codons under positive selection~~]		[http://archive.gersteinlab.org/prosnp/omega_pos_sel 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		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
	[[media:SuppTable2.xlsx\|Pos_sel_SNP sites]]		[[media:SuppTable2.xlsx\|Pos_sel_SNP sites]]

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

2011-08-03T20:32:57Z

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

← Older revision		Revision as of 20:32, 3 August 2011
Line 6:		Line 6:
	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)
	[http://archive.gersteinlab.org/prosnp/omega_pos_sel Codons under positive selection]		[http://archive.gersteinlab.org/prosnp/omega_pos_sel 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
			[[media:SuppTable2.xlsx\|Pos_sel_SNP sites]]


	Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments		Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments
	[[media:SuppTable3.xlsx\|1KG-gap_scores]]		[[media:SuppTable3.xlsx\|1KG-gap_scores]]

Public at 20:28, 3 August 2011

2011-08-03T20:28:12Z

← Older revision		Revision as of 20:28, 3 August 2011
Line 1:		Line 1:
	==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==

	Omega (dN/dS) values for all coding sites in Gencodev3b computed from 28 whole-genome vertebrate alignments using PAML.		Omega (dN/dS) values for all coding sites in Gencodev3b computed from 12 whole-genome vertebrate alignments using PAML.
	[http://archive.gersteinlab.org/prosnp/all_omega omega values for all codons]		[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)
	[http://archive.gersteinlab.org/prosnp/omega_pos_sel Codons under positive selection]		[http://archive.gersteinlab.org/prosnp/omega_pos_sel Codons under positive selection]

			Gap_scores for deletions from 1000 Genomes Pilot 1 data (1KG-DELs) computed from 28 whole-genome vertebrate alignments
			[[media:SuppTable3.xlsx\|1KG-gap_scores]]

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

2011-08-03T20:18:06Z

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

← Older revision		Revision as of 20:18, 3 August 2011
Line 2:		Line 2:

	Omega (dN/dS) values for all coding sites in Gencodev3b computed from 28 whole-genome vertebrate alignments using PAML.		Omega (dN/dS) values for all coding sites in Gencodev3b computed from 28 whole-genome vertebrate alignments using PAML.
	[http://archive.gersteinlab.org/prosnp/ omega values for all codons]		[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)
			[http://archive.gersteinlab.org/prosnp/omega_pos_sel Codons under positive selection]