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Series GSE108455 Query DataSets for GSE108455
Status Public on Feb 13, 2018
Title Genome-wide mapping of binding sites of the MADS domain protein FRUITFULL in Arabidopis thaliana
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary FUL has a dual role in regulating floral transition and fruit development. We used ChIP-seq to map and compare the FUL binding events in the two different tissues.
 
Overall design We used a pFUL:FUL-GFP line to conduct chromatin immuno-precipitation experiments with GFP-specific antibodies sampling two different tissue types, inflorescence meristems and pistils/siliques. The IP was followed by library preparation and deep-sequencing (ChIP-seq) to determine the FUL binding sites on a genome-wide scale. Inflorescence meristems were harvested from 4-5 weeks old 35S:AP1-GR ap1 cal pFUL:FUL-GFP lines, while stage 12-16 pistils/siliques were harvested from ful-1 pFUL:FUL-GFP lines. The tissue was fixed for 15-30’ and the immunoprecipitation was performed according to Kaufmann et al., 2010 (doi: 10.1038/ nprot.2009.244.). Experiments were done in two biological replicates with the according input sample as control.
 
Contributor(s) van Mourik H, Muiño J, Smaczniak C, Bemer M, Chen D, Angenent G, Kaufmann K
Citation(s) 29422669
Submission date Dec 22, 2017
Last update date Dec 23, 2018
Contact name Dijun Chen
E-mail(s) chendijun2012@gmail.com
Phone 030-2093 49744
Organization name Humboldt University
Department Plant Cell and Molecular Biology
Lab Prof. Kaufmann
Street address Philippstr. 13 (House 22)
City Berlin
ZIP/Postal code 10115
Country Germany
 
Platforms (1)
GPL13222 Illumina HiSeq 2000 (Arabidopsis thaliana)
Samples (6)
GSM2898768 FUL IM, rep1
GSM2898769 FUL IM, rep2
GSM2898770 FUL IM, input
Relations
BioProject PRJNA427320
SRA SRP127403

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
GSE108455_FUL_IM.narrowPeak.bed.gz 104.1 Kb (ftp)(http) BED
GSE108455_FUL_IM.rpkm.bw 52.0 Mb (ftp)(http) BW
GSE108455_FUL_pistil.narrowPeak.bed.gz 95.2 Kb (ftp)(http) BED
GSE108455_FUL_pistil.rpkm.bw 41.0 Mb (ftp)(http) BW
GSE108455_RAW.tar 225.4 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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