Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Chromosomal Mcm2-7 distribution and the genome replication program in species from yeast to humans

ABSTRACT: Chromosomal Mcm2-7 distribution and the genome replication program in species from yeast to humans

PROVIDER: PRJNA633612 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR15613656_1.fastq.gz	Fastqsanger.gz
	SRR15613656_2.fastq.gz	Fastqsanger.gz
	SRR15613657_1.fastq.gz	Fastqsanger.gz
	SRR15613657_2.fastq.gz	Fastqsanger.gz
	SRR15613658_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 44

Similar Datasets

Chromosomal Mcm2-7 distribution and the genome replication program in species from yeast to humans

Project description:The spatio-temporal program of genome replication across eukaryotes is thought to be driven both by the uneven loading of pre-replication complexes (pre-RCs) across the genome at the onset of S-phase, and by differences in the timing of activation of these complexes during S-phase. To determine the degree to which distribution of pre-RC loading alone could account for chromosomal replication patterns, we mapped the binding sites of the Mcm2-7 helicase complex (MCM) in budding yeast, fission yeast, mouse and humans. We observed identical individual MCM double-hexamer (DH) footprints across the species, but notable differences in their distribution. Nonetheless, most fluctuations in replication timing in all four organisms could be accounted for by differences in chromosomal MCM distribution. We conclude that, although certain genomic regions, most notably the inactive X-chromosome, are subject to post-licensing regulation, most differences in replication timing along the chromosome reflect uneven chromosomal distribution of stochastically firing pre-replication complexes.

2021-05-18 | GSE150800 | GEO

Chromosomal Mcm2-7 distribution and the genome replication program in species from yeast to humans.

Project description:The spatio-temporal program of genome replication across eukaryotes is thought to be driven both by the uneven loading of pre-replication complexes (pre-RCs) across the genome at the onset of S-phase, and by differences in the timing of activation of these complexes during S phase. To determine the degree to which distribution of pre-RC loading alone could account for chromosomal replication patterns, we mapped the binding sites of the Mcm2-7 helicase complex (MCM) in budding yeast, fission yeast, mouse and humans. We observed similar individual MCM double-hexamer (DH) footprints across the species, but notable differences in their distribution: Footprints in budding yeast were more sharply focused compared to the other three organisms, consistent with the relative sequence specificity of replication origins in S. cerevisiae. Nonetheless, with some clear exceptions, most notably the inactive X-chromosome, much of the fluctuation in replication timing along the chromosomes in all four organisms reflected uneven chromosomal distribution of pre-replication complexes.

| S-EPMC8443269 | biostudies-literature

Kc167 Mcm2-7 Localization in HU

Project description:Determination of the genome-wide distribution of the Mcm2-7 helicase by chromatin immunoprecipitation in the Drosophila Kc167 cell line at the beginning of S phase. Kc167 cells were arrested at the G1/S transition with hydroxyurea (HU). Goal was to evaluate changes in the genome-wide Mcm2-7 distribution throughout the cell cycle, and how this relates to the excess Mcm2-7 loaded onto chromatin in G1. ChIP-Chip of Mcm2-7 in HU compared to input genomic DNA. Biological Replicates: 2

2014-11-27 | E-GEOD-63680 | biostudies-arrayexpress

Post-licensing specification of eukaryotic replication origins by facilitated Mcm2-7 sliding along DNA

Project description:Eukaryotic genomes are replicated from many origin sites that are licensed by the loading of inactive double hexamers of the replicative DNA helicase, Mcm2-7. How eukaryotic origin positions are specified remains elusive. Here we show that, contrary to the bacterial paradigm, eukaryotic origins are not irrevocably defined by selection of the loading site for the replicative helicase, but can shift in position after helicase loading. Using purified proteins, we show that DNA translocases, including RNA polymerase, can push budding yeast Mcm2-7 double hexamers along DNA. Displaced Mcm2-7 double hexamers support DNA replication initiation distal to the loading site in vitro. In yeast cells that are defective for transcription termination, collisions with RNA polymerase induce a shift in origin positions that correlates with the direction of transcription. These results reveal a eukaryotic origin specification mechanism that departs from the classical replicon model, helping eukaryotic cells to negotiate transcription-replication conflict. 4 samples: one replicate for WT at 37C, two replicates for rat1-1 at 37C, and one replicate for rat1-1 at 24C. All are single-end sequenced via Ion Torrent PGM methodology. rat1 = Nuclear 5' to 3' single-stranded RNA exonuclease; involved in RNA metabolism (http://www.yeastgenome.org/locus/S000005574/overview). 4 ChIP seq samples and their duplicates are submitted. rat1-1 ORC ChIP at 24C and 37C; rat1-1 MCM ChIP at 24C and 37C.

2016-01-07 | E-GEOD-69065 | biostudies-arrayexpress

ChIP-Seq experiment of Mcm2-HA in wild type and H3K37R yeast cells

Project description:This ChIP-Seq experiment profiles Mcm2 binding to chromatin in wild type yeast cells and in cells with the K37R mutation in histone H3

2021-04-28 | E-MTAB-9070 | biostudies-arrayexpress

Post-licensing specification of eukaryotic replication origins by facilitated Mcm2-7 sliding along DNA

2016-01-07 | GSE69065 | GEO

Kc167 Mcm2-7 Localization in HU

2014-11-27 | GSE63680 | GEO

ChIP-Seq of yeast MCM2 in a time-course experiment after release from the G1 cell-cycle phase

Project description:ChIP-Seq experiment of MCM2 binding to chromatin in a time-course experiment after release from the G1 cell-cycle phase

2021-04-28 | E-MTAB-9071 | biostudies-arrayexpress

ChIP-chip from Drosophila egg chambers using MCM2-7 antibody

Project description:Chromatin immunoprecipitation of the MCM2-7 replicative helicase followed by hybridization to genome-wide tiling microarrays demonstrated that MCMs localize to the follicle cell amplicons at stages of replication initiation Comparison of MCM2-7 ChIP sample compared to input DNA for Drosophila egg chambers

2011-09-06 | E-GEOD-31889 | biostudies-arrayexpress

Mcm2 promotes stem cell differentiation via its ability to bind H3-H4 (ChIP-Seq)

Project description:Mcm2, a subunit of the Mcm2-7 helicase best known for its role in DNA replication, contains a histone binding motif that facilitates the transfer of parental histone following DNA replication. Here we show that Mcm2 is important for the differentiation of mouse embryonic stem (ES) cells. Mcm2-2A mutation defective in histone binding impairs differentiation and programmatic changes in gene expression and histone modifications during differentiation. Mcm2 localizes at the transcription starting sites and the binding of Mcm2 at gene promoters is disrupted in both Mcm2-2A ES cells and neuro-precursor cells (NPCs). Reduced Mcm2 binding in Mcm2-2A ES cells correlates with decreased chromatin accessibility at bivalent chromatin domains containing repressive H3K27me3 and active H3K4me3 modifications in NPCs. Together, our studies reveal a novel function of Mcm2 in ES differentiation, likely through manipulating chromatin landscape at bivalent chromatin domains.

2022-11-16 | GSE203270 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data