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

Database: dm6 Primary Table: modENCODE_GSE23473_cluster Row Count: 7,169 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	8454	`int(10) unsigned`	range
`chromEnd`	9675	`int(10) unsigned`	range
`name`	GSE23473_enriched_3238	`varchar(255)`	values
`score`	59	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`signalValue`	0.592315	`float`	range
`pValue`	-1	`float`	range
`qValue`	-1	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue
585	chr2L	8454	9675	GSE23473_enriched_3238	59	+	0.592315	-1	-1
585	chr2L	11103	14794	GSE23473_enriched_3239	94	+	0.93849	-1	-1
585	chr2L	68152	70684	GSE23473_enriched_3240	115	+	1.14697	-1	-1
585	chr2L	75525	78719	GSE23473_enriched_3241	123	+	1.23484	-1	-1
585	chr2L	81371	82412	GSE23473_enriched_3242	90	+	0.897513	-1	-1
585	chr2L	83076	84871	GSE23473_enriched_3243	162	+	1.62325	-1	-1
585	chr2L	96393	101345	GSE23473_enriched_3244	132	+	1.3242	-1	-1
585	chr2L	103005	104727	GSE23473_enriched_3245	89	+	0.890449	-1	-1
585	chr2L	110734	113554	GSE23473_enriched_3246	112	+	1.1162	-1	-1
586	chr2L	132023	133343	GSE23473_enriched_3247	104	+	1.03509	-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.