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Series GSE228879 Query DataSets for GSE228879
Status Public on Jun 13, 2023
Title RIF1 regulates replication origin activity and early replication timing in B cells [SNS-seq]
Organism Mus musculus
Experiment type Other
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 SNS-seq inLacZ and Mcm infected CH12 and Rif -/- 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 03, 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 (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (8)
GSM7141028 CH12_SNSseq_Rif1KO_rep1
GSM7141029 CH12_SNSseq_Rif1KO_rep2
GSM7141030 CH12_SNSseq_WT_rep1
This SubSeries is part of SuperSeries:
GSE228880 RIF1 regulates early replication timing in murine B cells.
BioProject PRJNA951771

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
GSE228879_CH12_SNSseq_Rif1K0_shMcm6_vs_Rif1KO_shLacZ_IS.master.tsv.gz 3.8 Mb (ftp)(http) TSV
GSE228879_CH12_SNSseq_Rif1KO_IS.bed.gz 514.5 Kb (ftp)(http) BED
GSE228879_CH12_SNSseq_Rif1KO_shLacZ_IS.bed.gz 1.5 Mb (ftp)(http) BED
GSE228879_CH12_SNSseq_Rif1KO_shMcm6_IS.bed.gz 1.7 Mb (ftp)(http) BED
GSE228879_CH12_SNSseq_Rif1KO_vs_WT_IS.master.tsv.gz 990.7 Kb (ftp)(http) TSV
GSE228879_CH12_SNSseq_WT_IS.bed.gz 390.2 Kb (ftp)(http) BED
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Raw data are available in SRA
Processed data are available on Series record

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