Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

EdU-seq profile in B,untreated and upon HU treatment

ABSTRACT: In this study, we map sites of replication initiation and breakage in primary cells at high resolution under conditions of replication stress. We show that replication initiates between transcribed genes within nucleosome-depleted structures established by long asymmetrical poly(dA:dT) tracts flanking the initiation site. Paradoxically, large (>20 bp) homopolymeric (dA/dT) tracts are also preferential sites of polar replication fork stalling and collapse. We propose that the evolutionary expansion of poly(dA:dT) tracts in eukaryotic genomes serves to promote replication initiation, but at the cost of increasing chromosome fragility.

ORGANISM(S): Mus musculus

PROVIDER: GSE116316 | GEO | 2018/08/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

ChIP-seq profile of RPA in B upon HU treatment

Project description:In this study, we map sites of replication initiation and breakage in primary cells at high resolution under conditions of replication stress. We show that replication initiates between transcribed genes within nucleosome-depleted structures established by long asymmetrical poly(dA:dT) tracts flanking the initiation site. Paradoxically, large (>20 bp) homopolymeric (dA/dT) tracts are also preferential sites of polar replication fork stalling and collapse. We propose that the evolutionary expansion of poly(dA:dT) tracts in eukaryotic genomes serves to promote replication initiation, but at the cost of increasing chromosome fragility.

2018-08-01 | GSE116320 | GEO

END-seq profile in B,T, and HCT116 untreated and upon HU treatment

2018-08-01 | GSE116315 | GEO

Nascent RNA profile in B, and T cells untreated and upon HU treatment

2018-08-01 | GSE116317 | GEO

OK-seq profile from cycling (S) phase untreated B cells

2018-08-01 | GSE116319 | GEO

Repli-seq profile from resting (G0) and cycling (S) phase untreated B cells

2018-08-01 | GSE116318 | GEO

Dual Roles of Poly(dA:dT) Tracts in Replication Initiation and Fork Collapse

Project description:Dual Roles of Poly(dA:dT) Tracts in Replication Initiation and Fork Collapse

| PRJNA478131 | ENA

Real-time quantitative PCR analysis of mouse RAW264.7 macrophages

Project description:Mouse RAW264.7 macrophages were treated with LPS, IFNb, poly(rI:rC), poly(dA:dT), VSV, HSV, Sendai virus. Genes identified by Human Innate Immunity Interactome for type I Interferon (HI5) were examined for expression.

2011-09-08 | GSE31790 | GEO

Arabidopsis thaliana

Project description:In Vivo Mapping of Arabidopsis Scaffold/Matrix Attachment Regions Reveals Link to Nucleosome-Disfavoring Poly(dA:dT) Tracts

| PRJNA194562 | ENA

Genome-wide maps of nucleosome positions in Saccharomyces strains bearing heterologous DNA on yeast artificial chromosomes

Project description:We identify the cis and trans determinants of nucleosome positioning using a functional evolutionary approach involving S. cerevisiae strains containing large genomic regions from other yeast species. In a foreign species, nucleosome depletion at promoters is maintained over poly(dA:dT) tracts, whereas internucleosome spacing and all other aspects of nucleosome positioning tested are not. Interestingly, the locations of the +1 nucleosome and RNA start sites shift in concert. Strikingly, in a foreign species, nucleosome-depleted regions occur fortuitously in coding regions, and they often act as promoters that are associated with a positioned nucleosome array linked to the length of the transcription unit.

2012-07-01 | GSE39011 | GEO

Gene expression profile in peritoneal macrophage stimulated with B-DNA or CpG-B

Project description:Toll-like receptor and RIG-I-like receptor classs may evoke or instruct a distinct type of response that is more reflective of the pathogen encountered. Although this issue may be critical to a better understanding of the regulation of immune responses to microbial infections, it has not been addressed through a direct, side-by-side comparison of the two receptor classes. To address this, we performed microarray analysis of mRNAs from peritoneal macrophages stimulated with a synthetic B-form DNA, poly(dA-dT)・poly(dT-dA) ( B-DNA) or a CpG-B oligonucleotide, which respectively activates RLRs or TLR9, and identified B-DNA inducible genes and CpG-B inducible genes.

2012-05-20 | GSE37854 | 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