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

Database: dm6 Primary Table: modENCODE_GSE20800_cluster Row Count: 6,707 Data last updated: 2022-10-21

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	17301	`int(10) unsigned`	range
`chromEnd`	18508	`int(10) unsigned`	range
`name`	GSE20800_enriched_2912	`varchar(255)`	values
`score`	85	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`signalValue`	0.848446	`float`	range
`pValue`	-1	`float`	range
`qValue`	-1	`float`	range

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	signalValue	pValue	qValue
585	chr2L	17301	18508	GSE20800_enriched_2912	85	+	0.848446	-1	-1
585	chr2L	19998	21313	GSE20800_enriched_2913	85	+	0.854371	-1	-1
585	chr2L	67466	70876	GSE20800_enriched_2914	98	+	0.98396	-1	-1
585	chr2L	71777	73051	GSE20800_enriched_2915	75	+	0.754019	-1	-1
585	chr2L	74357	75984	GSE20800_enriched_2916	56	+	0.563366	-1	-1
585	chr2L	84542	87168	GSE20800_enriched_2917	124	+	1.2381	-1	-1
585	chr2L	102810	106661	GSE20800_enriched_2918	86	+	0.864099	-1	-1
585	chr2L	108199	111224	GSE20800_enriched_2919	123	+	1.2317	-1	-1
585	chr2L	112765	113786	GSE20800_enriched_2920	37	+	0.368504	-1	-1
585	chr2L	118220	120681	GSE20800_enriched_2921	128	+	1.27729	-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.