Schema for PolII ChIP-Seq (Cell Lines) - RNA Polymerase II ChIP-Seq for Cell Lines

Database: dm6 Primary Table: EMBL_PolII_S2_idr Row Count: 32,233 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	5533	`int(10) unsigned`	range
`chromEnd`	6013	`int(10) unsigned`	range
`name`	.	`varchar(255)`	values
`score`	1000	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	2.90109	`float`	range
`pValue`	30.2774	`float`	range
`qValue`	28.7036	`float`	range
`peak`	317	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	5533	6013	.	1000	.	2.90109	30.2774	28.7036	317
585	chr2L	7648	8379	.	629	.	1.90222	7.38869	6.24101	609
585	chr2L	7648	8379	.	629	.	1.9312	8.84079	7.65218	310
585	chr2L	8692	9458	.	866	.	2.30295	17.5385	16.1607	506
585	chr2L	8692	9458	.	866	.	2.22181	18.3936	17.0004	195
585	chr2L	18226	19215	.	1000	.	3.36017	25.5516	24.0442	392
585	chr2L	18226	19215	.	1000	.	1.51756	2.79969	1.8247	898
585	chr2L	18226	19215	.	1000	.	2.63983	17.5718	16.1933	109
585	chr2L	18226	19215	.	1000	.	3.0935	23.0141	21.5447	672
585	chr2L	66672	67719	.	1000	.	3.50894	75.8121	73.67	390

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

PolII ChIP-Seq (Cell Lines) (cells_polII_chipseq) Track Description


	Description These tracks show the regions in the D. melanogaster genome that are significantly enriched in RNA Polymerase II (PolII) in different cell lines as determined by MACS2. The signal tracks correspond to the log likelihood enrichment ratios of the treatment versus the DNA input sample as determined by the `bdgcmp` program in MACS2. The Irreproducible Discovery Rate (IDR) peak calls were produced by the idr program using a global IDR threshold of 0.05. The RNA PolII ChIP-Seq reads for the S2 cells were obtained from the EBI ENA database under the accession number PRJEB3031. The antibody used in this study recognizes the Rpb3 subunit of RNA PolII. References 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. doi: 10.1186/gb-2008-9-9-r137. Epub 2008 Sep 17.

Description