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

Database: DvirCAF1 Primary Table: GSE102439_eyediscs_macs Row Count: 32,906 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	scaffold_10111	`varchar(255)`	values
`chromStart`	4281	`int(10) unsigned`	range
`chromEnd`	4614	`int(10) unsigned`	range
`name`	GSE102439_DvirCAF1_atac_mac...	`varchar(255)`	values
`score`	198	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	5.17433	`float`	range
`pValue`	21.6462	`float`	range
`qValue`	19.8292	`float`	range
`peak`	139	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	scaffold_10111	4281	4614	GSE102439_DvirCAF1_atac_macs_peak_1	198	.	5.17433	21.6462	19.8292	139
585	scaffold_10277	63	1019	GSE102439_DvirCAF1_atac_macs_peak_2a	128	.	4.15976	14.4311	12.8186	217
585	scaffold_10277	63	1019	GSE102439_DvirCAF1_atac_macs_peak_2b	221	.	5.47871	23.9819	22.1036	470
585	scaffold_10277	63	1019	GSE102439_DvirCAF1_atac_macs_peak_2c	491	.	8.62389	51.7323	49.1793	786
585	scaffold_10304	5360	5678	GSE102439_DvirCAF1_atac_macs_peak_3	205	.	5.27579	22.4166	20.5792	181
585	scaffold_10318	97	307	GSE102439_DvirCAF1_atac_macs_peak_4	128	.	4.15976	14.4311	12.8186	105
585	scaffold_10322	40710	41038	GSE102439_DvirCAF1_atac_macs_peak_5	285	.	6.29037	30.5488	28.506	164
585	scaffold_10322	41218	41802	GSE102439_DvirCAF1_atac_macs_peak_6	540	.	9.13118	56.7209	54.048	354
585	scaffold_10322	48199	48421	GSE102439_DvirCAF1_atac_macs_peak_7	109	.	3.85539	12.4582	10.9077	108
585	scaffold_10322	52803	53069	GSE102439_DvirCAF1_atac_macs_peak_8	139	.	4.08526	15.5774	13.9336	131

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. virilis 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