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

Database: DanaCAF1 Primary Table: GSE102439_eyediscs_idr Row Count: 6,304 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	scaffold_10010	`varchar(255)`	values
`chromStart`	6215	`int(10) unsigned`	range
`chromEnd`	6696	`int(10) unsigned`	range
`name`	.	`varchar(255)`	values
`score`	1000	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	13.5332	`float`	range
`pValue`	93.9873	`float`	range
`qValue`	89.7875	`float`	range
`peak`	221	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	scaffold_10010	6215	6696	.	1000	.	13.5332	93.9873	89.7875	221
586	scaffold_10513	166669	167661	.	569	.	3.298	8.34231	6.67092	178
586	scaffold_10513	166669	167661	.	569	.	5.79993	24.0274	21.8072	750
585	scaffold_10575	4538	5573	.	808	.	7.90663	58.9479	55.6898	582
585	scaffold_10575	6409	6929	.	753	.	6.77711	45.4144	42.556	247
585	scaffold_12430	41235	42434	.	855	.	3.61446	11.0594	9.27634	132
585	scaffold_12430	41235	42434	.	855	.	5.42169	23.753	21.5429	729
585	scaffold_12430	41235	42434	.	855	.	7.63052	42.7376	39.9604	435
585	scaffold_12586	44715	45462	.	848	.	5.42169	23.753	21.5429	567
585	scaffold_12586	44715	45462	.	848	.	8.09524	49.4183	46.442	189

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. ananassae 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