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Series GSE139256 Query DataSets for GSE139256
Status Public on Jul 01, 2020
Title Timeless collaborates with DDX11 to ensure processive replication of G4-forming DNA [RNA-seq]
Organism Gallus gallus
Experiment type Expression profiling by high throughput sequencing
Summary Regions of DNA with the potential to form secondary structure pose a frequent and significant impediment to DNA replication that must be actively countered by cells in order to preserve genetic and epigenetic integrity. The fork protection complex (FPC), a conserved group of replisome-associated proteins, comprising Timeless, plays an important role in maintaining efficient replisome function. A previously unappreciated DNA binding domain in the C terminus of Timeless, which exhibits specificity towards G4 structures, acts in collaboration with the DDX11 helicase to ensure replication of G4 structures in vivo and maintenance of genetic and epigenetic stability. Using RNA-seq experiments, we show that (i) Timeless and DDX11 share common gene targets, (ii) the promoter of Timeless- and DDX11-dependent genes are enriched in G4 structures in the vicinity of their promoter and (iii) both Timeless and DDX11 share a common set of gene targets with the FANCJ helicase known to maintain epigenetic stability in the vicinity of G4 structures.
 
Overall design RNA-seq data of WT, TIMELESS, DDX11 and FANCJ KO DT40 cells
 
Contributor(s) Koch Lerner L, Murat P, Sale JE
Citation(s) 32705708
Submission date Oct 22, 2019
Last update date Oct 05, 2020
Contact name Julian E Sale
E-mail(s) jes@mrc-lmb.cam.ac.uk
Organization name MRC Laboratory of Molecular Biology
Department PNAC
Street address Cambridge Biomedical Campus, Francis Crick Ave
City Cambridge UK
ZIP/Postal code CB2 0QH
Country United Kingdom
 
Platforms (1)
GPL23499 Illumina HiSeq 4000 (Gallus gallus)
Samples (12)
GSM4134900 WT_rep_1
GSM4134901 WT_rep_2
GSM4134902 WT_rep_3
Relations
BioProject PRJNA578917
SRA SRP226629

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE139256_RAW.tar 7.2 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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