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

Database: dm6 Primary Table: GSE59726_Su_H_rabbit_ab_peakzilla Row Count: 4,467 Data last updated: 2021-09-01

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	5682	`int(10) unsigned`	range
`chromEnd`	6050	`int(10) unsigned`	range
`name`	peakzilla_1917	`varchar(255)`	values
`score`	3	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	3.35	`float`	range
`pValue`	-1	`float`	range
`qValue`	1.41908	`float`	range
`peak`	184	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	5682	6050	peakzilla_1917	3	.	3.35	-1	1.41908	184
585	chr2L	27903	28271	peakzilla_2635	3	.	2.12	-1	0.91257	184
585	chr2L	66759	67127	peakzilla_748	7	.	3.7	-1	1.62893	184
585	chr2L	67126	67494	peakzilla_1584	4	.	3.84	-1	1.54975	184
585	chr2L	72324	72692	peakzilla_1681	4	.	3.29	-1	1.54821	184
585	chr2L	87265	87633	peakzilla_3346	2	.	2.38	-1	0.56193	184
585	chr2L	90171	90539	peakzilla_2226	3	.	3.12	-1	1.19997	184
585	chr2L	107864	108232	peakzilla_655	8	.	5.6	-1	1.82391	184
585	chr2L	109121	109489	peakzilla_2389	3	.	2.34	-1	1.04624	184
585	chr2L	129147	129515	peakzilla_481	10	.	5.41	-1	2.08619	184

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