GSM1318868: Aa_INPUT-ChIP_rep1; Arabis alpina; ChIP-Seq - SRA

SRX456459: GSM1318868: Aa_INPUT-ChIP_rep1; Arabis alpina; ChIP-Seq
1 ILLUMINA (Illumina Genome Analyzer IIx) run: 36.7M spots, 1.5G bases, 887.3Mb downloads

Submitted by: Gene Expression Omnibus (GEO)

Study: Genome-wide profiling of H3K4me3, H3K27me3 H3K27me1 and 5mC enrichment and mRNA levels in young leaves of Arabis alpina

PRJNA237036 • SRP036074 • All experiments • All runs

show Abstracthide Abstract

Chromatin, DNA and RNA were extracted from young A. alpina Pajares primary stem leaves. Chromatin and DNA methylation immunoprecipitation experiments were performed using commercially available antibodies and analyzed by Illumina sequencing (ChIP-seq and MeDIP-seq). Transcriptome data were generated by RNA-seq. Overall design: ChIP-seq analysis of H3K4me3, H3K27me3 and H3K27me1 enrichment profiles and MeDIP-seq analysis of 5mC enrichment profiles in 2 biological replicates. RNA-seq analysis of mRNA levels in 1 biological replicate.

Sample: Aa_INPUT-ChIP_rep1

SAMN02604377 • SRS549194 • All experiments • All runs

Organism: Arabis alpina

Library:

Instrument: Illumina Genome Analyzer IIx

Strategy: ChIP-Seq

Source: GENOMIC

Selection: ChIP

Layout: SINGLE

Construction protocol: Chromatin and DNA immunoprecipitation was performed essentially as described in Gendrel et al., 2005 and Cortijo et al., 2014, respectively. Total RNA was extracted using RNeasy Mini Kit (Qiagen) according to manufacturers instructions and its quality was validated using RNA 6000 NanoChip (Agilent). 20 ng of immunoprecipitated (IP) and genomic (INPUT) DNA and 1 ug of total RNA were used to prepare libraries with the ChIP-Seq DNA Sample Prep Kit IP-102-1001 and TruSeq RNA Sample Prep Kit v2 RS-122-2002 (Illumina), respectively. Quality of libraries was validated using 2100 Bioanalyzer (Agilent). Libraries were sequenced with Illumina Genome Analyzer IIx according to manufacturers instructions.

Experiment attributes:

GEO Accession: GSM1318868

Links:

External link: GEO Sample GSM1318868

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 36.7M spots, 1.5G bases, 887.3Mb

Run	# of Spots	# of Bases	Size	Published
SRR1151357	36,721,117	1.5G	887.3Mb	2015-02-04

ID:: 635407

SRA

Sequence Read Archive

Result Filters

Send to:

Supplemental Content

Related information

Search details

Recent activity