Searching for transcription factor binding sites in vector spaces

BMC Bioinformatics

Table 3 Results of independent validation on ChIP-seq data

ENCODE	JASPAR	Name	PSSM	ULPB	NPV	S	IC	ODV	S	IC
GATA3_(SC-268)	MA0037	GATA3	0.48922	0.46841	0.50963	1	Y	0.51441	1	Y
MEF2A	MA0052	MEF2A	0.42566	0.45955	0.35283	3	Y	0.34807	3	N
PU.1	MA0080.2	SPI1	0.50631	0.49267	0.57575	3	Y	0.58014	3	N
SRF	MA0083	SRF	0.34299	0.38457	0.43920	2	N	0.43183	3	N
NRSF	MA0138	REST	0.50615	0.46371	0.46603	1	N	0.47956	2	N
	MA0138.2	REST	0.48031	0.48299	0.49070	3	Y	0.49522	3	N
ERalpha_a	MA0112.2	ESR1	0.53980	0.49058	0.52414	3	N	0.52146	1	N
STAT1	MA0137.2	STAT1	0.55348	0.58555	0.61733	1	N	0.62338	1	Y
CTCF	MA0139.1	CTCF	0.60370	0.60377	0.63785	2	Y	0.64769	2	Y
CTCF_(C-20)			0.44108	0.44696	0.53181			0.54306
CTCF_(SC-5916)			0.46729	0.47047	0.54097			0.55028
FOXA1_(C-20)	MA0148.1	FOXA1	0.48083	0.48698	0.48994	3	Y	0.49853	3	N
FOXA1_(SC-101058)			0.48897	0.48326	0.49945			0.50986
EBF	MA0154.1	EBF1	0.50011	0.51202	0.56084	3	Y	0.59172	3	N
EBF1_(C-8)			0.42214	0.43705	0.52067			0.53207
FOXA2_(SC-6554)	MA0047.2	Foxa2	0.48328	0.39496	0.45500	3	Y	0.47906	3	N
STAT3	MA0144.1	Stat3	0.39145	0.33052	0.38094	3	Y	0.43807	3	Y
POU5F1_(SC-9081)	MA0142.1	Pou5f1	0.42151	0.42793	0.40855	3	N	0.45449	3	N

Subspaces (S) $R^{4 l}$ , $R^{(16 l - 12)}$ and $R^{(36 l - 48)}$ are denoted by 1, 2 and 3, respectively.

ISSN: 1471-2105