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

Database: dm6 Primary Table: GSE85191_H3K27ac_macs Row Count: 21,111 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	8720	`int(10) unsigned`	range
`chromEnd`	8961	`int(10) unsigned`	range
`name`	GSE85191_H3K27ac_macs_peak_1	`varchar(255)`	values
`score`	50	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	1.55585	`float`	range
`pValue`	6.63687	`float`	range
`qValue`	5.08627	`float`	range
`peak`	123	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	8720	8961	GSE85191_H3K27ac_macs_peak_1	50	.	1.55585	6.63687	5.08627	123
585	chr2L	14482	14714	GSE85191_H3K27ac_macs_peak_2	20	.	1.32738	3.22364	2.04231	100
585	chr2L	14976	15272	GSE85191_H3K27ac_macs_peak_3	48	.	1.51413	6.40976	4.8801	130
585	chr2L	22146	22531	GSE85191_H3K27ac_macs_peak_4	41	.	1.4842	5.6481	4.18684	180
585	chr2L	44107	44335	GSE85191_H3K27ac_macs_peak_5	54	.	1.5395	7.00634	5.42803	122
585	chr2L	45922	46355	GSE85191_H3K27ac_macs_peak_6	222	.	2.24257	24.8676	22.2464	206
585	chr2L	46421	47361	GSE85191_H3K27ac_macs_peak_7	341	.	2.58593	37.3279	34.1409	544
585	chr2L	52668	53332	GSE85191_H3K27ac_macs_peak_8a	219	.	2.23184	24.5106	21.9074	175
585	chr2L	52668	53332	GSE85191_H3K27ac_macs_peak_8b	229	.	2.26403	25.5878	22.9303	474
585	chr2L	53531	54029	GSE85191_H3K27ac_macs_peak_9	209	.	2.19965	23.4519	20.9035	198

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