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

Database: dm6 Primary Table: GSE59726_Su_H_rabbit_ab_macs Row Count: 4,809 Data last updated: 2021-09-01

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	5580	`int(10) unsigned`	range
`chromEnd`	6016	`int(10) unsigned`	range
`name`	GSE59726_Su_H_rabbit_ab_mac...	`varchar(255)`	values
`score`	220	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	3.62113	`float`	range
`pValue`	24.6659	`float`	range
`qValue`	22.0128	`float`	range
`peak`	283	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	5580	6016	GSE59726_Su_H_rabbit_ab_macs_peak_1	220	.	3.62113	24.6659	22.0128	283
585	chr2L	27082	27382	GSE59726_Su_H_rabbit_ab_macs_peak_2	70	.	2.00396	9.30114	7.08653	138
585	chr2L	27922	28253	GSE59726_Su_H_rabbit_ab_macs_peak_3	100	.	2.44169	12.4142	10.0786	173
585	chr2L	66778	67452	GSE59726_Su_H_rabbit_ab_macs_peak_4a	400	.	3.99725	43.0002	40.0269	164
585	chr2L	66778	67452	GSE59726_Su_H_rabbit_ab_macs_peak_4b	178	.	3.2012	20.3892	17.8293	530
585	chr2L	72386	72654	GSE59726_Su_H_rabbit_ab_macs_peak_5	130	.	2.70159	15.5308	13.0957	136
585	chr2L	90228	90486	GSE59726_Su_H_rabbit_ab_macs_peak_6	132	.	2.94672	15.723	13.283	130
585	chr2L	107845	108259	GSE59726_Su_H_rabbit_ab_macs_peak_7	459	.	4.64696	49.0042	45.9438	197
585	chr2L	109107	109458	GSE59726_Su_H_rabbit_ab_macs_peak_8	62	.	2.0724	8.42988	6.25711	199
585	chr2L	129062	129519	GSE59726_Su_H_rabbit_ab_macs_peak_9	440	.	4.07411	47.065	44.0326	259

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