This super-track combines related tracks of ChIP-chip data
generated by the Affymetrix/Harvard ENCODE collaboration.
ChIP-chip, also known as genome-wide location analysis, is a technique for
isolation and identification of DNA sequences bound by specific proteins in
These tracks contain ChIP-chip data of multiple transcription
factors, RNA polymerase II and histones, in multiple cell lines,
including HL-60 (leukemia) and ME-180 (cervical carcinoma),
and at different time points after drug cell treatment.
Binding was assayed on Affymetrix ENCODE tiling arrays.
Data are displayed as signals,
median p-values, "strict" p-values and sites.
These data were generated and analyzed by collaboration of
the Tom Gingeras group at
Affymetrix and the
Kevin Struhl lab
at Harvard Medical School.
Please see the Affymetrix Transcriptome site for a project overview and
additional references to Affymetrix tiling array publications.
Bolstad BM, Irizarry RA, Astrand M, and Speed TP.
of normalization methods for high density oligonucleotide array data based
on variance and bias.
Bioinformatics. 2003 Jan 22;19(2):185-93.
Cawley S, Bekiranov S, Ng HH, Kapranov P, Sekinger EA,
Kampa D, Piccolboni A, Sementchenko V, Cheng J,
Williams AJ et al.
Unbiased mapping of
transcription factor binding sites along human chromosomes 21 and 22 points
to widespread regulation of noncoding RNAs.
Cell. 2004 Feb 20;116(4):499-509.