Description Usage Format Details Source
SNVs associated with allele-specific binding (ASB)
1 |
A data frame with 8806 rows and 12 variables
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CHANGELOG
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v2.1
--same results from v2.0, with additional columns for alternate alleles and p values from the betabinomial test
v2.0
--results produced from updated scripts (available under 'Scripts' section, v2.0, http://alleledb.gersteinlab.org/docs/)
--minor debugs in scripts
v1.0
--results in publication
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The columns are defined as follows:
1:chr : chromosome
2:start : SNV start position (0-based)
3:end : SNV end position (1-based)
4:TF_indiv_ASB : (in ASB) transcription factor ; individual ID (as in the 1000 Genomes Project) ; ASB
TF_indiv_accB : transcription factor ; individual ID (as in the 1000 Genomes Project) ; accessible SNVs related to non-ASB
gene_indiv_ASE : (in ASE) HGNC gene symbol or NA if not in any gene ; individual ID ; ASE
gene_indiv_accE: HGNC gene symbol or NA if not in any gene ; individual ID ; accessible SNVs related to non-ASE
5:ref_allele : reference allele
6:alt_allele : alternate allele (multiple alleles are separated by ';')
7:cA : read counts for A
8:cC : read counts for C
9:cG : read counts for G
10:cT : read counts for T
11:p.betabinom : p values calculated from the betabinomial test in AlleleDB pipeline
** gene regions are defined in GENCODE v17.
http://alleledb.gersteinlab.org/download/
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