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

FLY (D. melanogaster) S2 CELLS COF-STAP-seq

• Tracks on the UCSC Genome Browser

• Processed data tables (also on NCBI GEO (GSE116197))

  List of 72,000 CP candidates included in the STAP-seq library [17M]
  Unique tagcounts (not normalized) for all CP candidates - 3 replicates per COF [15M]
  Normalized tagcounts (normalized to spike-in) for all CP candidates - merged replicates per COF [20M]
  Normalized tagcounts and CP group assignment for 30,936 CPs activated by at least one COF [12M]
  Normalized tagcounts and CP group assignment for non-redundant (non-overlapping) set of activated CPs [11M]

• Raw sequencing data (also on NCBI GEO (GSE116197))
  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 S2 cells COF-STAP-seq Rep1, paired-end read 1 [473M]
  P65 S2 cells COF-STAP-seq Rep1, paired-end read 2 [504M]
  P65 S2 cells COF-STAP-seq Rep2, paired-end read 1 [534M]
  P65 S2 cells COF-STAP-seq Rep2, paired-end read 2 [574M]
  P65 S2 cells COF-STAP-seq Rep3, paired-end read 1 [642M]
  P65 S2 cells COF-STAP-seq Rep3, paired-end read 2 [687M]

  MED25
  MED25 S2 cells COF-STAP-seq Rep1, paired-end read 1 [479M]
  MED25 S2 cells COF-STAP-seq Rep1, paired-end read 2 [513M]
  MED25 S2 cells COF-STAP-seq Rep2, paired-end read 1 [454M]
  MED25 S2 cells COF-STAP-seq Rep2, paired-end read 2 [486M]
  MED25 S2 cells COF-STAP-seq Rep3, paired-end read 1 [468M]
  MED25 S2 cells COF-STAP-seq Rep3, paired-end read 2 [506M]

  P300 (Nej)
  P300 S2 cells COF-STAP-seq Rep1, paired-end read 1 [607M]
  P300 S2 cells COF-STAP-seq Rep1, paired-end read 2 [645M]
  P300 S2 cells COF-STAP-seq Rep2, paired-end read 1 [689M]
  P300 S2 cells COF-STAP-seq Rep2, paired-end read 2 [741M]
  P300 S2 cells COF-STAP-seq Rep3, paired-end read 1 [548M]
  P300 S2 cells COF-STAP-seq Rep3, paired-end read 2 [585M]

  Lpt
  Lpt S2 cells COF-STAP-seq Rep1, paired-end read 1 [363M]
  Lpt S2 cells COF-STAP-seq Rep1, paired-end read 2 [383M]
  Lpt S2 cells COF-STAP-seq Rep2, paired-end read 1 [289M]
  Lpt S2 cells COF-STAP-seq Rep2, paired-end read 2 [307M]
  Lpt S2 cells COF-STAP-seq Rep3, paired-end read 1 [318M]
  Lpt S2 cells COF-STAP-seq Rep3, paired-end read 2 [337M]

  MED15
  MED15 S2 cells COF-STAP-seq Rep1, paired-end read 1 [138M]
  MED15 S2 cells COF-STAP-seq Rep1, paired-end read 2 [146M]
  MED15 S2 cells COF-STAP-seq Rep2, paired-end read 1 [156M]
  MED15 S2 cells COF-STAP-seq Rep2, paired-end read 2 [165M]
  MED15 S2 cells COF-STAP-seq Rep3, paired-end read 1 [134M]
  MED15 S2 cells COF-STAP-seq Rep3, paired-end read 2 [142M]

  Brd9 (CG7154)
  Brd9 S2 cells COF-STAP-seq Rep1, paired-end read 1 [44M]
  Brd9 S2 cells COF-STAP-seq Rep1, paired-end read 2 [47M]
  Brd9 S2 cells COF-STAP-seq Rep2, paired-end read 1 [43M]
  Brd9 S2 cells COF-STAP-seq Rep2, paired-end read 2 [46M]
  Brd9 S2 cells COF-STAP-seq Rep3, paired-end read 1 [65M]
  Brd9 S2 cells COF-STAP-seq Rep3, paired-end read 2 [69M]

  Brd4 (fs1h)
  Brd4 S2 cells COF-STAP-seq Rep1, paired-end read 1 [33M]
  Brd4 S2 cells COF-STAP-seq Rep1, paired-end read 2 [35M]
  Brd4 S2 cells COF-STAP-seq Rep2, paired-end read 1 [29M]
  Brd4 S2 cells COF-STAP-seq Rep2, paired-end read 2 [31M]
  Brd4 S2 cells COF-STAP-seq Rep3, paired-end read 1 [30M]
  Brd4 S2 cells COF-STAP-seq Rep3, paired-end read 2 [32M]

  Br140
  Br140 S2 cells COF-STAP-seq Rep1, paired-end read 1 [117M]
  Br140 S2 cells COF-STAP-seq Rep1, paired-end read 2 [121M]
  Br140 S2 cells COF-STAP-seq Rep2, paired-end read 1 [82M]
  Br140 S2 cells COF-STAP-seq Rep2, paired-end read 2 [87M]
  Br140 S2 cells COF-STAP-seq Rep3, paired-end read 1 [98M]
  Br140 S2 cells COF-STAP-seq Rep3, paired-end read 2 [105M]

  Trr
  Trr S2 cells COF-STAP-seq Rep1, paired-end read 1 [40M]
  Trr S2 cells COF-STAP-seq Rep1, paired-end read 2 [42M]
  Trr S2 cells COF-STAP-seq Rep2, paired-end read 1 [41M]
  Trr S2 cells COF-STAP-seq Rep2, paired-end read 2 [44M]
  Trr S2 cells COF-STAP-seq Rep3, paired-end read 1 [66M]
  Trr S2 cells COF-STAP-seq Rep3, paired-end read 2 [69M]

  Trx
  Trx S2 cells COF-STAP-seq Rep1, paired-end read 1 [141M]
  Trx S2 cells COF-STAP-seq Rep1, paired-end read 2 [150M]
  Trx S2 cells COF-STAP-seq Rep2, paired-end read 1 [336M]
  Trx S2 cells COF-STAP-seq Rep2, paired-end read 2 [358M]
  Trx S2 cells COF-STAP-seq Rep3, paired-end read 1 [410M]
  Trx S2 cells COF-STAP-seq Rep3, paired-end read 2 [437M]

  MED24
  MED24 S2 cells COF-STAP-seq Rep1, paired-end read 1 [13M]
  MED24 S2 cells COF-STAP-seq Rep1, paired-end read 2 [14M]
  MED24 S2 cells COF-STAP-seq Rep2, paired-end read 1 [12M]
  MED24 S2 cells COF-STAP-seq Rep2, paired-end read 2 [12M]
  MED24 S2 cells COF-STAP-seq Rep3, paired-end read 1 [19M]
  MED24 S2 cells COF-STAP-seq Rep3, paired-end read 2 [20M]

  Gfzf
  Gfzf S2 cells COF-STAP-seq Rep1, paired-end read 1 [152M]
  Gfzf S2 cells COF-STAP-seq Rep1, paired-end read 2 [181M]
  Gfzf S2 cells COF-STAP-seq Rep2, paired-end read 1 [222M]
  Gfzf S2 cells COF-STAP-seq Rep2, paired-end read 2 [268M]
  Gfzf S2 cells COF-STAP-seq Rep3, paired-end read 1 [191M]
  Gfzf S2 cells COF-STAP-seq Rep3, paired-end read 2 [229M]

  Chro
  Chro S2 cells COF-STAP-seq Rep1, paired-end read 1 [202M]
  Chro S2 cells COF-STAP-seq Rep1, paired-end read 2 [254M]
  Chro S2 cells COF-STAP-seq Rep2, paired-end read 1 [192M]
  Chro S2 cells COF-STAP-seq Rep2, paired-end read 2 [243M]
  Chro S2 cells COF-STAP-seq Rep3, paired-end read 1 [172M]
  Chro S2 cells COF-STAP-seq Rep3, paired-end read 2 [219M]

  Pzg
  Pzg S2 cells COF-STAP-seq Rep1, paired-end read 1 [608M]
  Pzg S2 cells COF-STAP-seq Rep1, paired-end read 2 [735M]
  Pzg S2 cells COF-STAP-seq Rep2, paired-end read 1 [695M]
  Pzg S2 cells COF-STAP-seq Rep2, paired-end read 2 [882M]
  Pzg S2 cells COF-STAP-seq Rep3, paired-end read 1 [718M]
  Pzg S2 cells COF-STAP-seq Rep3, paired-end read 2 [883M]

  EMSY (CG15356)
  EMSY S2 cells COF-STAP-seq Rep1, paired-end read 1 [843M]
  EMSY S2 cells COF-STAP-seq Rep1, paired-end read 2 [891M]
  EMSY S2 cells COF-STAP-seq Rep2, paired-end read 1 [32M]
  EMSY S2 cells COF-STAP-seq Rep2, paired-end read 2 [34M]
  EMSY S2 cells COF-STAP-seq Rep3, paired-end read 1 [38M]
  EMSY S2 cells COF-STAP-seq Rep3, paired-end read 2 [41M]

  Taf4
  Taf4 S2 cells COF-STAP-seq Rep1, paired-end read 1 [34M]
  Taf4 S2 cells COF-STAP-seq Rep1, paired-end read 2 [40M]
  Taf4 S2 cells COF-STAP-seq Rep2, paired-end read 1 [37M]
  Taf4 S2 cells COF-STAP-seq Rep2, paired-end read 2 [42M]
  Taf4 S2 cells COF-STAP-seq Rep3, paired-end read 1 [676M]
  Taf4 S2 cells COF-STAP-seq Rep3, paired-end read 2 [749M]

  Trf2
  Trf2 S2 cells COF-STAP-seq Rep1, paired-end read 1 [249M]
  Trf2 S2 cells COF-STAP-seq Rep1, paired-end read 2 [265M]
  Trf2 S2 cells COF-STAP-seq Rep2, paired-end read 1 [41M]
  Trf2 S2 cells COF-STAP-seq Rep2, paired-end read 2 [46M]
  Trf2 S2 cells COF-STAP-seq Rep3, paired-end read 1 [28M]
  Trf2 S2 cells COF-STAP-seq Rep3, paired-end read 2 [32M]

  Mof
  Mof S2 cells COF-STAP-seq Rep1, paired-end read 1 [579M]
  Mof S2 cells COF-STAP-seq Rep1, paired-end read 2 [620M]
  Mof S2 cells COF-STAP-seq Rep2, paired-end read 1 [504M]
  Mof S2 cells COF-STAP-seq Rep2, paired-end read 2 [536M]
  Mof S2 cells COF-STAP-seq Rep3, paired-end read 1 [835M]
  Mof S2 cells COF-STAP-seq Rep3, paired-end read 2 [892M]

  Brd8
  Brd8 S2 cells COF-STAP-seq Rep1, paired-end read 1 [301M]
  Brd8 S2 cells COF-STAP-seq Rep1, paired-end read 2 [309M]
  Brd8 S2 cells COF-STAP-seq Rep2, paired-end read 1 [21M]
  Brd8 S2 cells COF-STAP-seq Rep2, paired-end read 2 [22M]
  Brd8 S2 cells COF-STAP-seq Rep3, paired-end read 1 [19M]
  Brd8 S2 cells COF-STAP-seq Rep3, paired-end read 2 [20M]

  Tip60
  Tip60 S2 cells COF-STAP-seq Rep1, paired-end read 1 [120M]
  Tip60 S2 cells COF-STAP-seq Rep1, paired-end read 2 [123M]
  Tip60 S2 cells COF-STAP-seq Rep2, paired-end read 1 [83M]
  Tip60 S2 cells COF-STAP-seq Rep2, paired-end read 2 [88M]
  Tip60 S2 cells COF-STAP-seq Rep3, paired-end read 1 [80M]
  Tip60 S2 cells COF-STAP-seq Rep3, paired-end read 2 [82M]

  Tbp
  Tbp S2 cells COF-STAP-seq Rep1, paired-end read 1 [12M]
  Tbp S2 cells COF-STAP-seq Rep1, paired-end read 2 [14M]
  Tbp S2 cells COF-STAP-seq Rep2, paired-end read 1 [286M]
  Tbp S2 cells COF-STAP-seq Rep2, paired-end read 2 [308M]
  Tbp S2 cells COF-STAP-seq Rep3, paired-end read 1 [18M]
  Tbp S2 cells COF-STAP-seq Rep3, paired-end read 2 [20M]

  Brm
  Brm S2 cells COF-STAP-seq Rep1, paired-end read 1 [100M]
  Brm S2 cells COF-STAP-seq Rep1, paired-end read 2 [102M]
  Brm S2 cells COF-STAP-seq Rep2, paired-end read 1 [55M]
  Brm S2 cells COF-STAP-seq Rep2, paired-end read 2 [59M]
  Brm S2 cells COF-STAP-seq Rep3, paired-end read 1 [74M]
  Brm S2 cells COF-STAP-seq Rep3, paired-end read 2 [73M]

  Atac2
  Atac2 S2 cells COF-STAP-seq Rep1, paired-end read 1 [65M]
  Atac2 S2 cells COF-STAP-seq Rep1, paired-end read 2 [674M]
  Atac2 S2 cells COF-STAP-seq Rep2, paired-end read 1 [26M]
  Atac2 S2 cells COF-STAP-seq Rep2, paired-end read 2 [28M]
  Atac2 S2 cells COF-STAP-seq Rep3, paired-end read 1 [57M]
  Atac2 S2 cells COF-STAP-seq Rep3, paired-end read 2 [59M]

  PCAF (Gcn5)
  PCAF S2 cells COF-STAP-seq Rep1, paired-end read 1 [67M]
  PCAF S2 cells COF-STAP-seq Rep1, paired-end read 2 [68M]
  PCAF S2 cells COF-STAP-seq Rep2, paired-end read 1 [34M]
  PCAF S2 cells COF-STAP-seq Rep2, paired-end read 2 [36M]
  PCAF S2 cells COF-STAP-seq Rep3, paired-end read 1 [33M]
  PCAF S2 cells COF-STAP-seq Rep3, paired-end read 2 [33M]

  GFP
  GFP S2 cells COF-STAP-seq Rep1, paired-end read 1 [162M]
  GFP S2 cells COF-STAP-seq Rep1, paired-end read 2 [161M]
  GFP S2 cells COF-STAP-seq Rep2, paired-end read 1 [121M]
  GFP S2 cells COF-STAP-seq Rep2, paired-end read 2 [122M]
  GFP S2 cells COF-STAP-seq Rep3, paired-end read 1 [9.6M]
  GFP S2 cells COF-STAP-seq Rep3, paired-end read 2 [9.9M]
  GFP S2 cells COF-STAP-seq Rep4, paired-end read 1 [40M]
  GFP S2 cells COF-STAP-seq Rep4, paired-end read 2 [41M]
  GFP S2 cells COF-STAP-seq Rep5, paired-end read 1 [30M]
  GFP S2 cells COF-STAP-seq Rep5, paired-end read 2 [33M]
  GFP S2 cells COF-STAP-seq Rep6, paired-end read 1 [42M]
  GFP S2 cells COF-STAP-seq Rep6, paired-end read 2 [44M]

  input CP library
  Input 4xUAS CP library, paired-end read 1 [226M]
  Input 4xUAS CP library, paired-end read 2 [220M]