Schema for Henriques 2018 ChIP-Seq - ChIP-Seq Data from Henriques 2018 for S2 cells

Database: dm6 Primary Table: GSE85191_H3K27ac_idr Row Count: 18,255 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	13481	`int(10) unsigned`	range
`chromEnd`	14851	`int(10) unsigned`	range
`name`	.	`varchar(255)`	values
`score`	599	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	1.41629	`float`	range
`pValue`	4.59461	`float`	range
`qValue`	3.23762	`float`	range
`peak`	1084	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	13481	14851	.	599	.	1.41629	4.59461	3.23762	1084
585	chr2L	13481	14851	.	599	.	1.25859	2.34145	1.3095	710
585	chr2L	13481	14851	.	599	.	1.32833	3.28718	2.09826	141
585	chr2L	20549	20817	.	1000	.	1.69693	9.95939	8.17369	140
585	chr2L	22007	23064	.	598	.	1.27433	2.47386	1.41769	824
585	chr2L	22007	23064	.	598	.	1.4842	5.6481	4.18684	319
585	chr2L	45122	47386	.	1000	.	1.34125	3.17568	2.00012	248
585	chr2L	45122	47386	.	1000	.	1.29833	2.63317	1.54521	635
585	chr2L	45122	47386	.	1000	.	2.24257	24.8676	22.2464	1006
585	chr2L	45122	47386	.	1000	.	2.58593	37.3279	34.1409	1843

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

Henriques 2018 ChIP-Seq (henriques2018ChIPSeq) Track Description


	Description These tracks show the analysis results for the ChIP-Seq data produced by Henriques and colleagues (PMID: 29378787). The regions that are enriched in the histone modifications and chromosomal proteins were identified by MACS2. 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 NCBI Gene Expression Omnibus database under the accession number GSE85191. References Henriques T, Scruggs BS, Inouye MO, Muse GW, Williams LH, Burkholder AB, Lavender CA, Fargo DC, Adelman K. Widespread transcriptional pausing and elongation control at enhancers. Genes Dev. 2018 Jan 1;32(1):26-41. 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