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

Database: dm6 Primary Table: GSE102439_eyediscs_idr Row Count: 9,916 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	5432	`int(10) unsigned`	range
`chromEnd`	6061	`int(10) unsigned`	range
`name`	.	`varchar(255)`	values
`score`	1000	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	12.4526	`float`	range
`pValue`	72.1312	`float`	range
`qValue`	68.9319	`float`	range
`peak`	368	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	5432	6061	.	1000	.	12.4526	72.1312	68.9319	368
585	chr2L	59031	59778	.	1000	.	11.2412	69.0082	65.8939	263
585	chr2L	66469	67534	.	1000	.	5	24.4811	22.4895	886
585	chr2L	66469	67534	.	1000	.	9.57249	66.2784	63.2374	435
585	chr2L	72101	74163	.	754	.	3.94737	20.4816	18.5915	757
585	chr2L	72101	74163	.	754	.	4.2503	24.0239	22.0423	1901
585	chr2L	72101	74163	.	754	.	4.99398	32.2152	30.0294	1225
585	chr2L	72101	74163	.	754	.	5.77367	43.7093	41.2452	324
585	chr2L	88514	89012	.	651	.	5.16055	35.7943	33.5218	246
585	chr2L	91516	92509	.	656	.	4.13174	22.4249	20.4851	266

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. melanogaster 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