Schema for modENCODE Histone Modifications (R5) - modENCODE ChIP-chip Data for Histone Modifications (R5)

Database: dm6 Primary Table: modENCODE_GSE23475_cluster Row Count: 3,301 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	67003	`int(10) unsigned`	range
`chromEnd`	68114	`int(10) unsigned`	range
`name`	GSE23475_enriched_1431	`varchar(255)`	values
`score`	73	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`signalValue`	0.72847	`float`	range
`pValue`	-1	`float`	range
`qValue`	-1	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue
585	chr2L	67003	68114	GSE23475_enriched_1431	73	+	0.72847	-1	-1
585	chr2L	71386	75448	GSE23475_enriched_1432	106	+	1.06258	-1	-1
585	chr2L	94084	95731	GSE23475_enriched_1433	79	+	0.793494	-1	-1
585	chr2L	104876	106009	GSE23475_enriched_1434	71	+	0.708995	-1	-1
585	chr2L	109238	110372	GSE23475_enriched_1435	91	+	0.914792	-1	-1
585	chr2L	124724	125814	GSE23475_enriched_1436	63	+	0.629245	-1	-1
585	chr2L	127512	129338	GSE23475_enriched_1437	133	+	1.33389	-1	-1
586	chr2L	134568	135569	GSE23475_enriched_1438	38	+	0.383378	-1	-1
586	chr2L	136416	137837	GSE23475_enriched_1439	85	+	0.846886	-1	-1
586	chr2L	154551	156911	GSE23475_enriched_1440	92	+	0.924058	-1	-1

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

modENCODE Histone Modifications (R5) (modENCODE_histones_ChIPchip) Track Description

modENCODE ChIP-chip Sample Details

Description

These tracks show the ChIP-chip enrichment profiles for different histone modifications in BG3, Kc167, and S2 cell lines that were produced by the modENCODE project. The replicate set (repset) datasets were obtained from the NCBI BioProject database under the accession number PRJNA63463, and from the modENCODE data portal. The results were lifted from the D. melanogaster Release 5 assembly over to the Release 6 assembly.

modENCODE ChIP-chip Datasets

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References

Kharchenko PV, Alekseyenko AA, Schwartz YB, Minoda A, Riddle NC, Ernst J, Sabo PJ, Larschan E, Gorchakov AA, Gu T, Linder-Basso D, Plachetka A, Shanower G, Tolstorukov MY, Luquette LJ, Xi R, Jung YL, Park RW, Bishop EP, Canfield TK, Sandstrom R, Thurman RE, MacAlpine DM, Stamatoyannopoulos JA, Kellis M, Elgin SC, Kuroda MI, Pirrotta V, Karpen GH, Park PJ. Comprehensive analysis of the chromatin landscape in Drosophila melanogaster. Nature. 2011 Mar 24;471(7339):480-5.