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

Database: dm6 Primary Table: modENCODE_GSE20789_cluster Row Count: 7,088 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	13107	`int(10) unsigned`	range
`chromEnd`	14146	`int(10) unsigned`	range
`name`	GSE20789_enriched_3120	`varchar(255)`	values
`score`	62	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`signalValue`	0.621939	`float`	range
`pValue`	-1	`float`	range
`qValue`	-1	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue
585	chr2L	13107	14146	GSE20789_enriched_3120	62	+	0.621939	-1	-1
585	chr2L	14331	15816	GSE20789_enriched_3121	114	+	1.13937	-1	-1
585	chr2L	15945	18651	GSE20789_enriched_3122	170	+	1.70251	-1	-1
585	chr2L	19514	21456	GSE20789_enriched_3123	175	+	1.74824	-1	-1
585	chr2L	67578	71268	GSE20789_enriched_3124	180	+	1.80417	-1	-1
585	chr2L	72074	73090	GSE20789_enriched_3125	70	+	0.696215	-1	-1
585	chr2L	73458	76640	GSE20789_enriched_3126	153	+	1.52702	-1	-1
585	chr2L	85210	87168	GSE20789_enriched_3127	92	+	0.922656	-1	-1
585	chr2L	94964	98342	GSE20789_enriched_3128	182	+	1.81579	-1	-1
585	chr2L	102117	104989	GSE20789_enriched_3129	125	+	1.24898	-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.