EnhancerDB
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enhancer.gz(17.6M)

This file contains enhancers identified in 41 tissues as well as enhancers provided by FANTOM and VISTA Enhancer database.

  • - chrom, start, end : location information of enhancers
  • - id: ID number of enhancers in EnhancerDB
  • - tissue: In which tissue the enhancer exists
  • - R1(H3K4me1/total_H3K4me1),R2(H3K4me3/total_H3K4me3),R3(H3K27ac/total_H3K27ac),score(R1*R2/R3) percentage: normalized signal value of histone modifications invovled in enhancer identification

experiment.gz(21.5M)

This file in bed format contains TFBSs obtained from experiments (ENCODE Uniform TFBS or UCSC Txn Factor data).

  • - chrom, start, end : location information of TFBS
  • - TF symbol name
  • - data source: ENCODE Uniform TFBS or UCSC Txn Factor data
  • - tissue information of the TFBS data (for Txn Factor, tissue is defined as 'None').

predict.gz(831.3M)

This file in bed format contains TFBSs obtained by predicting tools (JASPAR or TRANSFAC).

  • - chrom, start, end : location information of TFBS
  • - TF symbol name
  • - tools used to predict: JASPAR or TRANSFAC

enhancer-miRNA.gz(380.3K)

This file contains information of identified regulatory association between enhancers and microRNAs.

  • - information of enhancers: chrom, start, end as well as id in EnhancerDB
  • - information of microRNAs: miRNA_name, chrom, start, end, TSS (provided by Fantom) and strand
  • - q Value calculated by hypergeom test and Benjamin-Hochberg

SNP.gz(102.2M)

This file in bed format contains SNPs located within TFBSs or enhancers in EnhancerDB.

  • - chrom, loci : location information of SNP
  • - SNP id in dbSNP b150
  • - Ref allele and Alt allele

eQTL.gz(13.4M)

This file contains eQTLs in EnhancerDB.

  • - information of SNP: id in dbSNP, chrom, loci, ref, alt
  • - information of Gene: Ensembl ID, SYMBOL name, chrom, start, end, strand
  • - distance between SNP and gene TSS, q value and tissue.