Schema for modENCODE PolII ChIP-Seq - modENCODE RNA Polymerase II ChIP-Seq

Database: dm6 Primary Table: L1_PolII_macs Row Count: 3,517 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	17945	`int(10) unsigned`	range
`chromEnd`	18641	`int(10) unsigned`	range
`name`	dm6_L1_PolII_peak_1a	`varchar(255)`	values
`score`	96	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	4.81273	`float`	range
`pValue`	12.3781	`float`	range
`qValue`	9.66854	`float`	range
`peak`	147	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	17945	18641	dm6_L1_PolII_peak_1a	96	.	4.81273	12.3781	9.66854	147
585	chr2L	17945	18641	dm6_L1_PolII_peak_1b	73	.	4.30987	9.85516	7.33931	543
585	chr2L	19450	19672	dm6_L1_PolII_peak_2	73	.	3.89189	9.89494	7.37266	107
585	chr2L	21017	21452	dm6_L1_PolII_peak_3	20	.	2.4977	3.92196	2.01356	127
585	chr2L	107900	108907	dm6_L1_PolII_peak_4a	124	.	3.69392	15.405	12.4989	263
585	chr2L	107900	108907	dm6_L1_PolII_peak_4b	54	.	2.51162	7.81208	5.46221	880
585	chr2L	109352	109591	dm6_L1_PolII_peak_5	104	.	3.72521	13.2545	10.4879	112
585	chr2L	129005	129374	dm6_L1_PolII_peak_6	155	.	4.25176	18.6582	15.5512	168
586	chr2L	155473	156064	dm6_L1_PolII_peak_7	75	.	3.14945	10.1204	7.58416	309
586	chr2L	158986	159341	dm6_L1_PolII_peak_8	96	.	3.46439	12.3752	9.66659	153

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

modENCODE PolII ChIP-Seq (modENCODE_polII_chipseq) Track Description


	Description These tracks show the regions in the genome that are significantly enriched in RNA Polymerase II ChIP-Seq reads at different developmental stages 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 ChIP-Seq data were produced as part of the modENCODE project and were obtained from the NCBI Sequence Reads Archive under the accession number SRP001424. Credits Ho JW et al. ChIP-chip versus ChIP-seq: lessons for experimental design and data analysis. BMC Genomics. 2011 Feb 28;12:134. Zhang Y et al. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 2008;9(9):R137.

Description