Schema for Eye Discs ATAC-Seq - ATAC-Seq of D. persimilis Eye Discs

Database: DperCAF1 Primary Table: GSE102439_eyediscs_idr Row Count: 18,791 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	super_0	`varchar(255)`	values
`chromStart`	518	`int(10) unsigned`	range
`chromEnd`	1025	`int(10) unsigned`	range
`name`	.	`varchar(255)`	values
`score`	1000	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	4.93475	`float`	range
`pValue`	32.5404	`float`	range
`qValue`	30.249	`float`	range
`peak`	311	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	super_0	518	1025	.	1000	.	4.93475	32.5404	30.249	311
585	super_0	1170	1818	.	1000	.	7.54727	69.4764	66.1214	350
585	super_0	5895	6681	.	844	.	1.65775	2.58151	1.34423	234
585	super_0	5895	6681	.	844	.	3.55913	17.1455	15.2729	618
585	super_0	11214	11811	.	1000	.	5.10892	34.7317	32.3832	272
585	super_0	28048	28572	.	1000	.	6.1236	49.8251	47.0786	239
585	super_0	30861	31171	.	848	.	3.30144	17.1106	15.2387	158
585	super_0	32710	33486	.	972	.	3.11665	16.0291	14.1904	616
585	super_0	32710	33486	.	972	.	4.0201	29.3088	27.1018	211
585	super_0	46228	47126	.	856	.	1.79076	3.57377	2.25489	95

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

Eye Discs ATAC-Seq (GSE102439_atac_eyediscs) Track Description


	Description These tracks show the results from Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq) of D. persimilis eye-antennal discs from 3rd instar larvae. The peak calls and 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 datasets were obtained from the NCBI BioProject database under the accession number PRJNA397749. References Jacobs J, Atkins M, Davie K, Imrichova H, Romanelli L, Christiaens V, Hulselmans G, Potier D, Wouters J, Taskiran II, Paciello G, González-Blas CB, Koldere D, Aibar S, Halder G, Aerts S. The transcription factor Grainy head primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes. Nat Genet. 2018 Jul;50(7):1011-1020. 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