U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

SRX4947949: GSM3449725: CS_seedlings_H3K4me1_ChIP_seq_rep2; Triticum aestivum; ChIP-Seq
2 ILLUMINA (Illumina HiSeq 3000) runs: 72.7M spots, 21.8G bases, 7.1Gb downloads

Submitted by: NCBI (GEO)
Study: Distinct chromatin signitures of promoters, enhancers and transposons in allohexaploid wheat
show Abstracthide Abstract
Bread wheat is allohexaploid with 16 Gb genome, which has large intergenic region with abundant TEs and regulatory sequences . Our results give insight into the connections between chromatin modifications and transcriptional regulatory activity and provide the first systematic epigenomic map for functional annotation of the allohexaploid wheat genome. Overall design: We integrated seven major chromatin marks, DNA methylome and open chromatin, along with transcriptomic data in allohexaploid wheat to systematically characterize distinct chromatin archetectures surrounding regulatory elements including promoters, enhancers and transposons.
Sample: CS_seedlings_H3K4me1_ChIP_seq_rep2
SAMN10340349 • SRS3990246 • All experiments • All runs
Library:
Instrument: Illumina HiSeq 3000
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: PAIRED
Construction protocol: Chromatin or RNA was extracted from 12-days-old seedlingss, using standard protocols. 2 microgram mRNA, 2 microgram total RNA (rRNA depleted) were used to prepare mRNA-seq and lncRNA-seq. 2.2 microgram DNA extracted from the harvested seedlings were used to prepare ChIP-seq DnaseI-seq and Bisulfite-seq . Library construction and deep sequencing were performed by Genergy Biotechnology Co. Ltd. (Shanghai, China) using Illumina HiSeq 3000 following the manufacturer's instructions (Illumina) to produce 150bp paired-end reads.
Experiment attributes:
GEO Accession: GSM3449725
Links:
Runs: 2 runs, 72.7M spots, 21.8G bases, 7.1Gb
Run# of Spots# of BasesSizePublished
SRR812661958,808,19217.6G5.4Gb2019-06-21
SRR812662013,904,3814.2G1.7Gb2019-06-21

ID:
6676125

Supplemental Content

Search details

See more...

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...