Valouev 2008, Jurkat cells, GABP SRF NRSF.


ChIP-seq against the transcriptional activators GABP, SRF and against the transcriptional repressor NRSF (utilizing polyclonal and monoclonal antibodies) in human Jurkat cells. A negative control (input) was used.



From H. sapiens (March 2006 NCBI36/hg18).

ChIP-seq data:

Filename Description Feature GEO-ID
1 gabp.sga Jurkat GABP GABP -
2 srf.sga Jurkat SRF SRF -
3 nrsf_poly.sga Jurkat NRSF(polyclonal) NRSF -
4 nrsf_mono.sga Jurkat NRSF(mono_clonal) NRSF -
5 input.sga Jurkat input Input -

ChIP-seq peaks files:

Filename Description Feature GEO-ID
1 gabp_peaks.sga Jurkat GABP peaks GABP_P -
2 srf_peaks.sga Jurkat SRF peaks SRF_P -
3 nrsf_poly_peaks.sga Jurkat NRSF(polyclonal) peaks NRSF_P -
4 nrsf_mono_peaks.sga Jurkat NRSF(mono_clonal) peaks NRSF_P -

Technical Notes

The input files contain the genomic coordinates of mapped sequence tags and peak centers in a single-position format. These files were converted into SGA with ad hoc Perl scripts. The sixth field of the peak SGA files contains the value of the third field from the input files. This field is named "locmax" and apparently was used as sort field for peak ranking by the authors.


Last update: 1 Oct 2018