Table 3

Summary of available experiments by cell line giving proportion of binding sites in the preferred classes

Factor

Cell line


GM128

K562

HeLa

HepG2

NT2D1

HCT116


GABP

0.991

0.976

NRSF

0.844

0.862

SRF

0.851

0.794

JunD

0.293

0.687

cFos

0.603

0.475

cJun

0.602

Max

0.675

SREBP1

0.742

SREBP2

0.734

STAT1

0.638

0.519

TR4

0.870

0.871

0.910

GATA1

0.736

GATA2

0.625

NF-E2

0.536

TCF7L2

0.483

Rad21

0.721

NFKB

0.686

YY1

0.876

ZNF263

0.856


This table summarises the ENCODE data for those transcription factors for which we found a motif from the MEME analysis and for which we had permission to use at the time of writing: it includes the JunD-GM128 result which is anomalously low. Other experimental treatments for cJun-K562 gave Ia6 = 0.637, Ig6 = 0.554, Ig30 = 0.573. For STAT1, the treatments were K562-Ia30 and HeLa-Ig30.

Evans BMC Genomics 2010 11:286   doi:10.1186/1471-2164-11-286

Open Data