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

Database: DmojCAF1 Primary Table: GSE102439_eyediscs_macs Row Count: 33,584 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	scaffold_1165	`varchar(255)`	values
`chromStart`	734	`int(10) unsigned`	range
`chromEnd`	1013	`int(10) unsigned`	range
`name`	GSE102439_DmojCAF1_atac_mac...	`varchar(255)`	values
`score`	147	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	3.81203	`float`	range
`pValue`	16.2497	`float`	range
`qValue`	14.7093	`float`	range
`peak`	104	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	scaffold_1165	734	1013	GSE102439_DmojCAF1_atac_macs_peak_1	147	.	3.81203	16.2497	14.7093	104
585	scaffold_1431	248	844	GSE102439_DmojCAF1_atac_macs_peak_2a	112	.	3.38048	12.6787	11.2253	148
585	scaffold_1431	248	844	GSE102439_DmojCAF1_atac_macs_peak_2b	141	.	3.74011	15.6336	14.1077	481
585	scaffold_1506	118	483	GSE102439_DmojCAF1_atac_macs_peak_3	129	.	3.59626	14.4261	12.929	198
585	scaffold_1506	697	919	GSE102439_DmojCAF1_atac_macs_peak_4	297	.	5.39438	31.6152	29.7525	108
585	scaffold_1543	1416	1942	GSE102439_DmojCAF1_atac_macs_peak_5a	239	.	4.81898	25.6577	23.9139	148
585	scaffold_1543	1416	1942	GSE102439_DmojCAF1_atac_macs_peak_5b	25	.	2.0139	3.74081	2.59	451
585	scaffold_1545	2409	2616	GSE102439_DmojCAF1_atac_macs_peak_6	61	.	2.66123	7.4692	6.16639	111
585	scaffold_1547	616	876	GSE102439_DmojCAF1_atac_macs_peak_7	165	.	4.02781	18.1455	16.562	121
585	scaffold_1552	756	1027	GSE102439_DmojCAF1_atac_macs_peak_8	61	.	2.66123	7.4692	6.16639	117

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. mojavensis 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