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

Database: DanaCAF1 Primary Table: GSE102439_eyediscs_macs Row Count: 21,434 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	scaffold_10010	`varchar(255)`	values
`chromStart`	6236	`int(10) unsigned`	range
`chromEnd`	6696	`int(10) unsigned`	range
`name`	GSE102439_DanaCAF1_atac_mac...	`varchar(255)`	values
`score`	897	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	13.5332	`float`	range
`pValue`	93.9873	`float`	range
`qValue`	89.7875	`float`	range
`peak`	200	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	scaffold_10010	6236	6696	GSE102439_DanaCAF1_atac_macs_peak_1	897	.	13.5332	93.9873	89.7875	200
585	scaffold_10484	933	1286	GSE102439_DanaCAF1_atac_macs_peak_2	45	.	2.8431	6.13028	4.56744	312
585	scaffold_10485	1836	2039	GSE102439_DanaCAF1_atac_macs_peak_3	129	.	4.43524	14.8237	12.9014	114
585	scaffold_10485	2715	2915	GSE102439_DanaCAF1_atac_macs_peak_4	109	.	4.09407	12.7514	10.9027	99
586	scaffold_10513	166735	167023	GSE102439_DanaCAF1_atac_macs_peak_5	66	.	3.298	8.34231	6.67092	112
586	scaffold_10513	167207	167590	GSE102439_DanaCAF1_atac_macs_peak_6	218	.	5.79993	24.0274	21.8072	212
585	scaffold_10575	4638	5561	GSE102439_DanaCAF1_atac_macs_peak_7	556	.	7.90663	58.9479	55.6898	482
585	scaffold_10575	6448	6885	GSE102439_DanaCAF1_atac_macs_peak_8	425	.	6.77711	45.4144	42.556	208
585	scaffold_11022	525	725	GSE102439_DanaCAF1_atac_macs_peak_9	122	.	4.32151	14.1217	12.2241	103
585	scaffold_12430	39404	39638	GSE102439_DanaCAF1_atac_macs_peak_10	104	.	3.81526	12.3097	10.4785	136

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