DNase I SIM sequence data from Arabidopsis thaliana seedlings - SRA

SRX1204325: DNase I SIM sequence data from Arabidopsis thaliana seedlings
1 ILLUMINA (Illumina HiSeq 2000) run: 157.9M spots, 3.2G bases, 2.4Gb downloads

Design: Arabidopsis seeds were surface sterilized in 12 % (w/v) bleach/0.1 % Tween 20 solution and washed extensively with sterile distilled water. Seeds were vernalized for 3 days at 4 °C in water, sown in two parallel rows on MS/agar plates (30 mM sucrose, 4.2 g Murashige and Skoog medium, and 0.8 % Phytagar, pH 5.8) covered with a 100 micron nylon membrane (Genesee Scientific). Seedlings were grown on vertical plates in the Conviron PGR15 growth chamber (12:12 h. light:dark, 21 °C, 50 % humidity, and 250 μmol/m 2 /s light intensity). Roots and leaves of 1 week old seedlings were dissected using surgical blade, flash-frozen in liquid nitrogen, and stored at −80 °C.

Submitted by: Oregon State University

Study: Arabidopsis thaliana cultivar:Col-0 Epigenomics

PRJNA285928 • SRP063454 • All experiments • All runs

show Abstracthide Abstract

DNase I digested genomic DNA was isolated from leaf and root tissue using a simplified version of the DNase-Seq protocol. This data was used to map DNase hypersensitve sites (DHS) on a genome-wide scale to interrogate regions of ''open chromatin'' for its capacity to regulate gene expression.

Sample: DNase-seq library in leaf sample from Arabidopsis thaliana

SAMN03761932 • SRS1059423 • All experiments • All runs

Organism: Arabidopsis thaliana

Library:

Name: arab_leaf_seedling_12h

Instrument: Illumina HiSeq 2000

Strategy: DNase-Hypersensitivity

Source: GENOMIC

Selection: size fractionation

Layout: SINGLE

Spot descriptor:

1 forward

Runs: 1 run, 157.9M spots, 3.2G bases, 2.4Gb

Run	# of Spots	# of Bases	Size	Published
SRR2297459	157,892,868	3.2G	2.4Gb	2015-09-11

ID:: 1739860

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