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

Database: dm6 Primary Table: GSE85191_Cohesin_idr Row Count: 20,608 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	5160	`int(10) unsigned`	range
`chromEnd`	5524	`int(10) unsigned`	range
`name`	.	`varchar(255)`	values
`score`	554	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	1.54948	`float`	range
`pValue`	6.23881	`float`	range
`qValue`	4.22636	`float`	range
`peak`	153	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	5160	5524	.	554	.	1.54948	6.23881	4.22636	153
585	chr2L	5607	6034	.	1000	.	1.60603	7.28522	5.10305	216
585	chr2L	6354	6909	.	1000	.	1.47031	4.90181	3.14651	241
585	chr2L	6354	6909	.	1000	.	1.54948	6.23881	4.22636	88
585	chr2L	6354	6909	.	1000	.	1.63996	7.94854	5.67111	451
585	chr2L	7509	8645	.	1000	.	1.42726	4.41581	2.76953	1036
585	chr2L	7509	8645	.	1000	.	1.48322	5.19841	3.38874	786
585	chr2L	7509	8645	.	1000	.	1.66258	8.4052	6.06654	219
585	chr2L	7509	8645	.	1000	.	1.76437	10.5998	7.99946	392
585	chr2L	8731	9439	.	973	.	1.25542	2.30746	1.23393	673

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