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Series GSE69422 Query DataSets for GSE69422
Status Public on Jul 28, 2016
Title Genome-wide identification of FHY3 binding sites in Arabidopsis floral organ (ChIP-Seq)
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary To identify FHY3 associated genes in floral organ. We performed ChIP-seq using 35S:3FLAG-FHY3-3HA fhy3-4 tansgenic plants. A total of 21, 24 and 37 million reads were obtained from two replicates and input library, respectively, which were uniquely mapped to the Arabidopsis genome by Bowtie2 software resulting in 1885 FHY3 binding peaks. 84% of FHY3 binding sites (1580 loci) were subsequently assigned to genic regions and grouped into 2192 genes in flower.
 
Overall design Inflorescence of 35S:3FLAG-FHY3-3HA fhy3-4 containing stage 8 and younger flowers were harvested for ChIP-seq analysis with anti-FLAG antibodies. No antibody served as negative control. The chromatin DNA from two distinct biological replicates and an input DNA sample were subjected to ultra-high-throughput Solexa (Illumina) sequencing.
 
Contributor(s) Liu X, Liu R
Citation(s) 27469166
Submission date Jun 01, 2015
Last update date May 15, 2019
Contact name Xing Fu
E-mail(s) xfu@sibs.ac.cn
Organization name Shanghai Center for Plant Stress Biology, Chinese Academy of Sciences
Street address 3888 Chenhua Road
City Shanghai
ZIP/Postal code 201602
Country China
 
Platforms (1)
GPL13222 Illumina HiSeq 2000 (Arabidopsis thaliana)
Samples (3)
GSM1701005 FHY3 ChIP-seq1
GSM1701006 FHY3 ChIP-seq2
GSM1701007 input
This SubSeries is part of SuperSeries:
GSE69425 Genome-wide identification of FHY3 binding sites in Arabidopsis floral organ
Relations
SRA SRP058919
BioProject PRJNA289556

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE69422_RAW.tar 50.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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