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

Database: DperCAF1 Primary Table: GSE102439_eyediscs_macs Row Count: 21,620 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	super_0	`varchar(255)`	values
`chromStart`	647	`int(10) unsigned`	range
`chromEnd`	1003	`int(10) unsigned`	range
`name`	GSE102439_DperCAF1_atac_mac...	`varchar(255)`	values
`score`	302	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	4.93475	`float`	range
`pValue`	32.5404	`float`	range
`qValue`	30.249	`float`	range
`peak`	182	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	super_0	647	1003	GSE102439_DperCAF1_atac_macs_peak_1	302	.	4.93475	32.5404	30.249	182
585	super_0	1195	1789	GSE102439_DperCAF1_atac_macs_peak_2	661	.	7.54727	69.4764	66.1214	325
585	super_0	4948	5242	GSE102439_DperCAF1_atac_macs_peak_3	63	.	2.36549	7.94032	6.38885	160
585	super_0	6362	6663	GSE102439_DperCAF1_atac_macs_peak_4	152	.	3.55913	17.1455	15.2729	151
585	super_0	11239	11657	GSE102439_DperCAF1_atac_macs_peak_5	323	.	5.10892	34.7317	32.3832	247
585	super_0	28071	28522	GSE102439_DperCAF1_atac_macs_peak_6	470	.	6.1236	49.8251	47.0786	216
585	super_0	30892	31150	GSE102439_DperCAF1_atac_macs_peak_7	152	.	3.30144	17.1106	15.2387	127
585	super_0	32278	32523	GSE102439_DperCAF1_atac_macs_peak_8	109	.	2.8021	12.7	10.9685	117
585	super_0	32743	33103	GSE102439_DperCAF1_atac_macs_peak_9	271	.	4.0201	29.3088	27.1018	178
585	super_0	33215	33446	GSE102439_DperCAF1_atac_macs_peak_10	141	.	3.11665	16.0291	14.1904	111

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