Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions

Table 3 Percentage of genes whose transcription start site is within 5 kb of ChIP/chip peaks

Regulatory class	Factor antibody	% genes close to 1% FDR peaks	% genes close to 25% FDR peaks
A-P early	BCD 2	6.2	29.6
	CAD 1	12.6	48.9
	GT 2	7.7	27.2
	HB 1	14.7	34.5
	KNI 2	1.2	37.2
	KR 2	27.0	65.3
	HKB 1	9.0	41.3
	TLL 1	2.8	20.8
	D 1	52.6	84.1
A-P pair rule	FTZ 3	2.6	29.1
	HRY 2	20.4	64.3
	PRD 1	14.8	51.0
	RUN 1	6.0	60.4
	SLP1 1	11.4	52.4
D-V	DA 2	38.2	76.7
	DL 3	66.5	87.0
	MAD 2	1.6	73.5
	MED 2	50.6	74.8
	SHN 2	2.1	9.6
	SNA 2	23.6	83.0
	TWI 2	53.0	90.3

For those factors for which ChIP/chip data are available for more than one antibody, values shown are for the antibody that gave the most bound regions above the 1% FDR threshold using the symmetric null test.

ISSN: 1474-760X