NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2526449 Query DataSets for GSM2526449
Status Public on Apr 03, 2017
Title Wild-type (1hr)
Sample type SRA
 
Source name whole plant
Organism Arabidopsis thaliana
Characteristics strain: C-0
time: 1h
treatment: not treated
antibody: Histone H4 ac antibody (Millipore 06-866)
Treatment protocol Treated with 10mM acetici acid solution or water for 9days. Solutions were added to soil.
Growth protocol Wild-type arabidopsis taliana (Col-0) were grown on soil for 14days.
Extracted molecule genomic DNA
Extraction protocol Please see Kim et al. (2014) Methods in Mol.Biol.;1062:405-26. doi: 10.1007/978-1-62703-580-4_22. ChIP assay was used Histon H4 ac antibody (Millipore 06-866).
Bar-code sequencing by SOLiD 5500 standard protocol (Thermo Fisher Scientific)
Used SOLiD 5500 standard protocol for ChIP-seq.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model AB 5500xl Genetic Analyzer
 
Data processing Sequence fragments were aligned on TAIR10 genome using bowtie program (version 1.1.2).
Only pairs whose distance was less than 1kb were counted using our in-house program and peaks were identified using MACS2 program (version 2.1.1).
Genome_build: tair10
Supplementary_files_format_and_content: wiggle
 
Submission date Mar 08, 2017
Last update date May 15, 2019
Contact name Takaho A. Endo
E-mail(s) takaho.endo@riken.jp
Organization name RIKEN
Department IMS
Lab Laboratory for Integrative Genomics
Street address 1-7-22 Suehiro, Tsurumi
City Yokohama
State/province Kanagawa
ZIP/Postal code 230-0045
Country Japan
 
Platform ID GPL16033
Series (1)
GSE95817 Acetici acid treated A.thaliana (Col-0)
Relations
BioSample SAMN06547409
SRA SRX2620190

Supplementary file Size Download File type/resource
GSM2526449_W1_H4ac.wig.gz 2.8 Mb (ftp)(http) WIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap