GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE229885 Query DataSets for GSE229885
Status Public on Jun 13, 2023
Title RIF1 regulates replication origin activity and early replication timing in B cells [RNA-seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The mammalian DNA replication timing (RT) program is crucial for the proper functioning and integrity of the genome. The best-known mechanism for controlling RT is the suppression of late origins of replication in heterochromatin by RIF1. Here, we report that in antigen-activated, hypermutating B lymphocytes, RIF1 binds predominantly to early-replicating active chromatin, regulates early origin firing and promotes early replication. However, RIF1 has a minor role in gene expression and genome organization in B cells. Furthermore, we find that RIF1 functions in a complementary and non-epistatic manner with minichromosome maintenance (MCM) proteins to establish early RT signatures genome-wide and, specifically, to ensure the early replication of highly transcribed genes. These findings reveal a new layer of regulation within the B cell RT program, driven by the coordinated activity of RIF1 and MCM proteins.
Overall design RNA-Seq LacZ and Mcm infected CH12 and Rif -/- CH12 cells
Web link
Contributor(s) Malzl D, Peycheva M, Rahjouei A, Gnan S, Klein KN, Nazarova M, Schoeberl UE, Gilbert DM, Buonomo SC, Di Virgilio M, Neumann T, Pavri R
Citation(s) 38081811
Submission date Apr 17, 2023
Last update date Dec 14, 2023
Contact name Tobias Neumann
Organization name IMP
Street address Campus-Vienna-Biocenter 1
City Vienna
ZIP/Postal code 1030
Country Austria
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (15)
GSM7179670 CH12_RNAseq_Rif1KO_shLacZ_rep1
GSM7179671 CH12_RNAseq_Rif1KO_shLacZ_rep2
GSM7179672 CH12_RNAseq_Rif1KO_shLacZ_rep3
This SubSeries is part of SuperSeries:
GSE228880 RIF1 regulates early replication timing in murine B cells.
BioProject PRJNA956525

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
GSE229885_CH12_DE_analysis_Rif1KOshMcm6_vs_Rif1KOshLacZ.txt.gz 460.5 Kb (ftp)(http) TXT
GSE229885_CH12_DE_analysis_rif1ko_vs_ctrl.txt.gz 756.1 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap