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Series GSE141704 Query DataSets for GSE141704
Status Public on Oct 27, 2020
Title LFY is pioneer transcription factor [ChIP-seq]
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary This study identified LEAFY (LFY) as a pioneer transcription factor. We made use of 35S:LFY-GR, an inducible version of the LFY protein fused to the rat glucocorticoid hormone binding domain. In root explants, steroid activated LFY-GR triggers synchronous and abundant flower induction (PMID: 15225291). We combined LFY ChIP-seq, MNase-seq before and after LFY binding and time-course RNA-seq in 35S:LFY-GR root explants to characterize the role of LFY as a pioneer transcription factor.
Overall design Identification of genomic regions bound by LFY in root explants identified using 35SLFY-GR in ecotype of Arabidopsis thaliana. ChIP seq was performed using anti LFY antibodies 24 hours after dexamethasone or mock treatment. Three biological replicates were sequenced for each condition, as were three inputs.
Web link
Contributor(s) Jin R, Klasfeld S, Wagner D
Citation(s) 33504790
Submission date Dec 09, 2019
Last update date Oct 05, 2021
Contact name Doris Wagner
Phone 2158980483
Organization name University of Pennsylvania
Department Department of Biology
Lab Wagner Lab
Street address 103G Carolyn Lynch Laboratory
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (9)
GSM4211306 callus Input Rep1
GSM4211307 callus Input Rep2
GSM4211308 callus Input Rep3
This SubSeries is part of SuperSeries:
GSE141706 LFY is pioneer transcription factor
BioProject PRJNA594412
SRA SRP235377

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
GSE141704_DvM_callusChIP_qval10.narrowPeak.gz 30.2 Kb (ftp)(http) NARROWPEAK
GSE141704_LFY1HrDex_pooled.bigwig 61.6 Mb (ftp)(http) BIGWIG
GSE141704_LFY1HrMock_pooled.bigwig 56.4 Mb (ftp)(http) BIGWIG
GSE141704_RAW.tar 491.1 Mb (http)(custom) TAR (of BIGWIG, BW)
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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