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

Database: dm6 Primary Table: GSE59726_Su_H_goat_ab_macs Row Count: 4,114 Data last updated: 2021-09-01

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	5515	`int(10) unsigned`	range
`chromEnd`	6006	`int(10) unsigned`	range
`name`	GSE59726_Su_H_goat_ab_macs_...	`varchar(255)`	values
`score`	53	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	2.14496	`float`	range
`pValue`	7.73454	`float`	range
`qValue`	5.36439	`float`	range
`peak`	105	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	5515	6006	GSE59726_Su_H_goat_ab_macs_peak_1a	53	.	2.14496	7.73454	5.36439	105
585	chr2L	5515	6006	GSE59726_Su_H_goat_ab_macs_peak_1b	39	.	2.02212	6.11802	3.90182	390
585	chr2L	66853	67094	GSE59726_Su_H_goat_ab_macs_peak_2	42	.	1.86588	6.4716	4.21931	146
585	chr2L	90218	90503	GSE59726_Su_H_goat_ab_macs_peak_3	175	.	3.17045	20.738	17.5555	145
586	chr2L	159035	159306	GSE59726_Su_H_goat_ab_macs_peak_4	68	.	2.26349	9.40222	6.8946	146
586	chr2L	160457	161250	GSE59726_Su_H_goat_ab_macs_peak_5a	118	.	2.5573	14.7641	11.8959	191
586	chr2L	160457	161250	GSE59726_Su_H_goat_ab_macs_peak_5b	80	.	2.29342	10.7032	8.09759	641
586	chr2L	161403	162220	GSE59726_Su_H_goat_ab_macs_peak_6a	98	.	2.27123	12.5817	9.84855	188
586	chr2L	161403	162220	GSE59726_Su_H_goat_ab_macs_peak_6b	228	.	2.80863	26.2331	22.8237	614
586	chr2L	166095	167034	GSE59726_Su_H_goat_ab_macs_peak_7a	87	.	2.4008	11.3957	8.74171	182

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