A blind deconvolution approach to high-resolution mapping of transcription factor binding sites from ChIP-seq data

Table 2 Results of CSDeconv on GABP data

Peak ID	Position	Amplitude	Position of motif match	Difference	Absolute difference	Location	CpG island
1	60,209,266.5	145.6	60,209,299.5	33	33	Upstream of Hs.631589	No
2	60,209,352.0	242.4	60,209,319.5	-32.5	32.5	Upstream of Hs.631589	No
3	60,209,441.8	32.1	60,209,417.5	-24.3	24.3	In Hs.631589	No
4	60,355,290.1	93.1	60,355,272.5	-17.6	17.6	In TNNI3	No
5	60,355,384.7	109.8	60,355,373.5	-11.2	11.2	In TNNI3	No
6	60,483,301.5	116.7	60,483,320.5	19	19	Upstream of HSPBP1	Yes
7	60,508,823.3	53.5	60,508,860.5	37.2	37.2	In BRSK1	No
8	60,589,079.4	89.0	60,589,061.5	-17.9	17.9	In LOC388564, Upstream of RPL28	Yes
9	60,784,129.0	152.4	60,784,167.5	38.5	38.5	Upstream of ZNF579	Yes
10	60,802,703.2	72.5	60,802,723.5	20.3	20.3	In FIZ1	Yes
11	60,802,828.5	34.2				Upstream of FIZ1	Yes
12	60,808,717.3	19.1	60,808,762.5	45.2	45.2	Downstream of ZNF524	Yes
13	60,838,116.9	163.1				Upstream of ZNF580	Yes
14	60,838,170.7	87.4	60,838,194.5	23.8	23.8	Upstream of ZNF580	Yes
15	60,846,738.1	37.1				Upstream of ZNF581	Yes
16	60,856,978.7	23.4				Upstream of U2AF2	Yes
17	60,878,268.6	125.4	60,878,250.5	-18.1	18.1	Upstream EPN1	Yes
18	60,878,368.7	105.4	60,878,386.5	17.8	17.8	Upstream of EPN1	Yes
19	61,517,917.1	24.8				Upstream of LOC729994	Yes
20	61,518,034.1	98.8	61,518,049.5	15.4	15.4	Upstream of LOC729994	Yes
21	61,518,366.6	26.5	61,518,358.5	-8.1	8.1	Upstream of LOC729994	Yes
22	61,741,681.4	16.8	61,741,681.5	0.1	0.1	In ZFP28	Yes
23	61,741,850.8	25.5	61,741,894.5	43.7	43.7	In ZFP28	Yes

CSDeconv identifies a total of 23 binding sites between position 60,000,000 and 62,000,000 on chromosome 19. The position of the sequence matching the motif shown in Figure 3a is given if such a sequence exists within 50 bp of the predicted binding site.

ISSN: 1474-760X