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

Database: dm6 Primary Table: E4_8_PolII_macs Row Count: 3,744 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	17946	`int(10) unsigned`	range
`chromEnd`	18127	`int(10) unsigned`	range
`name`	dm6_E4-8_PolII_peak_1	`varchar(255)`	values
`score`	56	`int(10) unsigned`	range
`strand`	.	`char(1)`	values
`signalValue`	3.56351	`float`	range
`pValue`	7.9669	`float`	range
`qValue`	5.67412	`float`	range
`peak`	76	`int(11)`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue	peak
585	chr2L	17946	18127	dm6_E4-8_PolII_peak_1	56	.	3.56351	7.9669	5.67412	76
585	chr2L	18173	18640	dm6_E4-8_PolII_peak_2a	28	.	2.82111	5.02002	2.88937	55
585	chr2L	18173	18640	dm6_E4-8_PolII_peak_2b	411	.	9.65116	44.0632	41.1305	324
585	chr2L	21176	21447	dm6_E4-8_PolII_peak_3	234	.	6.97853	26.1974	23.4938	126
585	chr2L	87241	87492	dm6_E4-8_PolII_peak_4	484	.	8.5543	51.4339	48.4143	129
585	chr2L	107943	108269	dm6_E4-8_PolII_peak_5	200	.	4.76815	22.6923	20.0405	150
585	chr2L	129130	129363	dm6_E4-8_PolII_peak_6	152	.	4.32475	17.7836	15.219	82
586	chr2L	131997	132208	dm6_E4-8_PolII_peak_7	73	.	3.20032	9.70801	7.34924	107
586	chr2L	155645	155966	dm6_E4-8_PolII_peak_8a	97	.	3.77648	12.1653	9.73054	66
586	chr2L	155645	155966	dm6_E4-8_PolII_peak_8b	32	.	2.57733	5.45779	3.29832	241

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