Haberle V*, Arnold CD*, Pagani M, Rath M, Schernhuber K, Stark A. Transcriptional cofactors display specificity for distinct types of core promoters. Nature 2019, May 15. Pubmed 31092928

HUMAN HCT116 CELLS COF-STAP-seq

• Tracks on the UCSC Genome Browser

• Processed data tables (also on NCBI GEO (GSE126221))

  List of 12,000 CP candidates included in the STAP-seq library [3.0M]
  Unique tagcounts (not normalized) for all CP candidates - 3 replicates per COF [1.4M]
  Normalized tagcounts (normalized to spike-in) for all CP candidates - merged replicates per COF [2.0M]

• Raw sequencing data (also on NCBI GEO (GSE126221))
  Note that the first 10 nucleotides of the read 1 are UMI (unique molecular identifier) and should be removed before mapping (but kept for correct counting of the unique initiation events after mapping).

  P65
  P65 HCT116 cells COF-STAP-seq Rep1, paired-end read 1 [551M]
  P65 HCT116 cells COF-STAP-seq Rep1, paired-end read 2 [655M]
  P65 HCT116 cells COF-STAP-seq Rep2, paired-end read 1 [573M]
  P65 HCT116 cells COF-STAP-seq Rep2, paired-end read 2 [687M]
  P65 HCT116 cells COF-STAP-seq Rep3, paired-end read 1 [475M]
  P65 HCT116 cells COF-STAP-seq Rep3, paired-end read 2 [514M]

  MED15
  MED15 HCT116 cells COF-STAP-seq Rep1, paired-end read 1 [335M]
  MED15 HCT116 cells COF-STAP-seq Rep1, paired-end read 2 [382M]
  MED15 HCT116 cells COF-STAP-seq Rep2, paired-end read 1 [469M]
  MED15 HCT116 cells COF-STAP-seq Rep2, paired-end read 2 [536M]
  MED15 HCT116 cells COF-STAP-seq Rep3, paired-end read 1 [341M]
  MED15 HCT116 cells COF-STAP-seq Rep3, paired-end read 2 [355M]

  EP300
  EP300 HCT116 cells COF-STAP-seq Rep1, paired-end read 1 [559M]
  EP300 HCT116 cells COF-STAP-seq Rep1, paired-end read 2 [655M]
  EP300 HCT116 cells COF-STAP-seq Rep2, paired-end read 1 [430M]
  EP300 HCT116 cells COF-STAP-seq Rep2, paired-end read 2 [495M]
  EP300 HCT116 cells COF-STAP-seq Rep3, paired-end read 1 [337M]
  EP300 HCT116 cells COF-STAP-seq Rep3, paired-end read 2 [354M]

  BRD4
  BRD4 HCT116 cells COF-STAP-seq Rep1, paired-end read 1 [239M]
  BRD4 HCT116 cells COF-STAP-seq Rep1, paired-end read 2 [273M]
  BRD4 HCT116 cells COF-STAP-seq Rep2, paired-end read 1 [252M]
  BRD4 HCT116 cells COF-STAP-seq Rep2, paired-end read 2 [290M]
  BRD4 HCT116 cells COF-STAP-seq Rep3, paired-end read 1 [50M]
  BRD4 HCT116 cells COF-STAP-seq Rep3, paired-end read 2 [51M]

  MLL3
  MLL3 HCT116 cells COF-STAP-seq Rep1, paired-end read 1 [329M]
  MLL3 HCT116 cells COF-STAP-seq Rep1, paired-end read 2 [374M]
  MLL3 HCT116 cells COF-STAP-seq Rep2, paired-end read 1 [158M]
  MLL3 HCT116 cells COF-STAP-seq Rep2, paired-end read 2 [182M]
  MLL3 HCT116 cells COF-STAP-seq Rep3, paired-end read 1 [138M]
  MLL3 HCT116 cells COF-STAP-seq Rep3, paired-end read 2 [145M]

  EMSY
  EMSY HCT116 cells COF-STAP-seq Rep1, paired-end read 1 [87M]
  EMSY HCT116 cells COF-STAP-seq Rep1, paired-end read 2 [98M]
  EMSY HCT116 cells COF-STAP-seq Rep2, paired-end read 1 [115M]
  EMSY HCT116 cells COF-STAP-seq Rep2, paired-end read 2 [131M]
  EMSY HCT116 cells COF-STAP-seq Rep3, paired-end read 1 [59M]
  EMSY HCT116 cells COF-STAP-seq Rep3, paired-end read 2 [61M]

  GFP
  GFP HCT116 cells COF-STAP-seq Rep1, paired-end read 1 [82M]
  GFP HCT116 cells COF-STAP-seq Rep1, paired-end read 2 [92M]
  GFP HCT116 cells COF-STAP-seq Rep2, paired-end read 1 [84M]
  GFP HCT116 cells COF-STAP-seq Rep2, paired-end read 2 [95M]
  GFP HCT116 cells COF-STAP-seq Rep3, paired-end read 1 [272M]
  GFP HCT116 cells COF-STAP-seq Rep3, paired-end read 2 [312M]

  input CP library
  Input 4xUAS CP library, paired-end read 1 [317M]
  Input 4xUAS CP library, paired-end read 2 [334M]