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Series GSE114418 Query DataSets for GSE114418
Status Public on May 01, 2024
Title Genome-wide analysis of transcription in dek3 mutants and DEK3-over expressors [2 temperatures at 2 time points]
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Summary The decision of whether to grow and proliferate or to restrict growth and develop resilience to stress is a key biological trade-off. Multiple tumour suppressors have roles in suppressing growth and proliferation when conditions are unfavourable, and aggressive tumours show re-wiring of the metabolic pathways and removal of these restraints on growth. In plants, constitutive growth results in increased sensitivity to environmental stress. However, the underlying mechanisms controlling this decision are not well understood. We used temperature as a cue to discover regulators of this process in plants, as it both enhances growth and development rates within a specific range, and is also a stress at extremes. We find the conserved chromatin protein DEK plays a central role in balancing the response between growth and arrest in Arabidopsis, and it does this via H2A.Z-nucleosomes. DEK target genes show two distinct categories of chromatin architecture, and these predict induction or repression by DEK. We show that these chromatin signatures of DEK target genes might be conserved in human cells, suggesting that DEK may act through a fundamental evolutionarily conserved mechanism to control the balance between growth and arrest in plants and animals.
Overall design RNA-seq were generated for seedlings in different temperature at 2 time points. ZT0 time point just before the lights are on (End of the night); ZT8-just before the light are off(end of the day)
Contributor(s) Brestovitsky A, Wigge P
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Submission date May 14, 2018
Last update date May 01, 2024
Contact name Anna Brestovitsky
Organization name Sainsbury Laboratory (SLCU), University of Cambridge
Street address Bateman Street
City Cambridge
ZIP/Postal code CB2 1LR
Country United Kingdom
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (32)
GSM3141429 Col_17_T0_rep1
GSM3141430 Col_17_T0_rep2
GSM3141431 Col_17_T8_rep1
This SubSeries is part of SuperSeries:
GSE114646 Genome-wide analysis of transcription in dek3 mutants and DEK3-over expressors
BioProject PRJNA471342
SRA SRP145673

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
GSE114418_RAW.tar 25.0 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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