Schema for Su(H) ChIP-Seq - ChIP-Seq of Suppressor of Hairless Proteins

Database: dm6 Primary Table: GSE59726_Su_H_goat_ab_idr Row Count: 210 Data last updated: 2021-09-01

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	90141	`int(10) unsigned`	range
`chromEnd`	90552	`int(10) unsigned`	range
`name`	.	`varchar(255)`	values
`score`	648	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	3.17045	`float`	range
`pValue`	20.738	`float`	range
`qValue`	17.5555	`float`	range
`peak`	222	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	90141	90552	.	648	.	3.17045	20.738	17.5555	222
593	chr2L	1076404	1077454	.	1000	.	4.82876	68.3135	64.0557	276
593	chr2L	1076404	1077454	.	1000	.	1.56859	3.84206	1.91832	851
595	chr2L	1420989	1422320	.	658	.	3.29273	26.3893	22.9742	791
595	chr2L	1420989	1422320	.	658	.	1.56239	3.27131	1.4443	200
595	chr2L	1420989	1422320	.	658	.	1.62179	4.08034	2.11704	1225
614	chr2L	3824640	3827024	.	732	.	1.51215	2.73187	1.01497	446
614	chr2L	3824640	3827024	.	732	.	2.00457	12.753	10.0095	1924
614	chr2L	3824640	3827024	.	732	.	2.12356	13.0481	10.2851	1427
614	chr2L	3824640	3827024	.	732	.	2.56932	14.5892	11.7314	170

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

Su(H) ChIP-Seq (SuHChIPSeq) Track Description


	Description These tracks show the results of the ChIP-Seq analyses of the Suppressor of hairless [Su(H)] protein. The regions that are enriched in the protein were identified by MACS2 and Peakzilla. The log likelihood ratio evidence tracks were produced by MACS2. The Irreproducible Discovery Rate (IDR) peak calls were produced by the idr program using a global IDR threshold of 0.05. The ChIP-Seq datasets were obtained from the Gene Expression Omnibus database at NCBI under the accession number GSE59726. References Ozdemir A, Ma L, White KP, Stathopoulos A. Su(H)-mediated repression positions gene boundaries along the dorsal-ventral axis of Drosophila embryos. Dev Cell. 2014 Oct 13;31(1):100-13. Bardet AF, Steinmann J, Bafna S, Knoblich JA, Zeitlinger J, Stark A. Identification of transcription factor binding sites from ChIP-seq data at high resolution. Bioinformatics. 2013 Nov 1;29(21):2705-13. Zhang Y, Liu T, Meyer CA, Eeckhoute J, Johnson DS, Bernstein BE, Nusbaum C, Myers RM, Brown M, Li W, Liu XS. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 2008;9(9):R137.

Description