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

Database: dm6 Primary Table: modENCODE_GSE23474_cluster Row Count: 1,736 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	72702	`int(10) unsigned`	range
`chromEnd`	74242	`int(10) unsigned`	range
`name`	GSE23474_enriched_767	`varchar(255)`	values
`score`	118	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`signalValue`	1.17612	`float`	range
`pValue`	-1	`float`	range
`qValue`	-1	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue
585	chr2L	72702	74242	GSE23474_enriched_767	118	+	1.17612	-1	-1
585	chr2L	74505	75750	GSE23474_enriched_768	133	+	1.33404	-1	-1
585	chr2L	105028	106737	GSE23474_enriched_769	158	+	1.58331	-1	-1
585	chr2L	108123	110336	GSE23474_enriched_770	258	+	2.58093	-1	-1
585	chr2L	118027	119270	GSE23474_enriched_771	86	+	0.855717	-1	-1
585	chr2L	124724	126596	GSE23474_enriched_772	137	+	1.37444	-1	-1
585	chr2L	126790	128671	GSE23474_enriched_773	178	+	1.78257	-1	-1
586	chr2L	157097	158657	GSE23474_enriched_774	124	+	1.24357	-1	-1
586	chr2L	188066	189161	GSE23474_enriched_775	97	+	0.965107	-1	-1
586	chr2L	236959	238520	GSE23474_enriched_776	135	+	1.34776	-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.