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

Database: dm6 Primary Table: GSE85191_PolII_Spt5depleted_macs Row Count: 12,553 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	5507	`int(10) unsigned`	range
`chromEnd`	5985	`int(10) unsigned`	range
`name`	GSE85191_PolII_Spt5depleted...	`varchar(255)`	values
`score`	22	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	1.66645	`float`	range
`pValue`	3.70649	`float`	range
`qValue`	2.24679	`float`	range
`peak`	190	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	5507	5985	GSE85191_PolII_Spt5depleted_macs_peak_1a	22	.	1.66645	3.70649	2.24679	190
585	chr2L	5507	5985	GSE85191_PolII_Spt5depleted_macs_peak_1b	49	.	1.96789	6.51588	4.90488	369
585	chr2L	8663	8843	GSE85191_PolII_Spt5depleted_macs_peak_2	48	.	1.74805	6.40881	4.80324	109
585	chr2L	13011	13191	GSE85191_PolII_Spt5depleted_macs_peak_3	78	.	1.85313	9.51193	7.801	87
585	chr2L	16854	17078	GSE85191_PolII_Spt5depleted_macs_peak_4	58	.	1.70471	7.53287	5.88372	98
585	chr2L	18292	19151	GSE85191_PolII_Spt5depleted_macs_peak_5	595	.	3.7549	62.0443	59.5608	334
585	chr2L	19578	19913	GSE85191_PolII_Spt5depleted_macs_peak_6	123	.	2.16207	14.1771	12.3525	185
585	chr2L	46079	47414	GSE85191_PolII_Spt5depleted_macs_peak_7a	48	.	2.03442	6.47019	4.86085	190
585	chr2L	46079	47414	GSE85191_PolII_Spt5depleted_macs_peak_7b	126	.	2.74825	14.4753	12.6442	734
585	chr2L	46079	47414	GSE85191_PolII_Spt5depleted_macs_peak_7c	135	.	2.81963	15.4073	13.5569	1080

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