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

Database: dm6 Primary Table: modENCODE_GSE45091_cluster Row Count: 6,762 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	66038	`int(10) unsigned`	range
`chromEnd`	67125	`int(10) unsigned`	range
`name`	GSE45091_enriched_2880	`varchar(255)`	values
`score`	77	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`signalValue`	0.770724	`float`	range
`pValue`	-1	`float`	range
`qValue`	-1	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue
585	chr2L	66038	67125	GSE45091_enriched_2880	77	+	0.770724	-1	-1
585	chr2L	67389	70762	GSE45091_enriched_2881	103	+	1.03017	-1	-1
585	chr2L	71386	73173	GSE45091_enriched_2882	140	+	1.40318	-1	-1
585	chr2L	74396	75750	GSE45091_enriched_2883	96	+	0.956898	-1	-1
585	chr2L	84662	87321	GSE45091_enriched_2884	133	+	1.33356	-1	-1
585	chr2L	102502	103879	GSE45091_enriched_2885	120	+	1.20339	-1	-1
585	chr2L	104570	106701	GSE45091_enriched_2886	113	+	1.13399	-1	-1
585	chr2L	108042	110811	GSE45091_enriched_2887	179	+	1.78973	-1	-1
585	chr2L	118262	122550	GSE45091_enriched_2888	182	+	1.82185	-1	-1
585	chr2L	123653	130846	GSE45091_enriched_2889	222	+	2.22429	-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.