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MetabolomicsThe pyruvate kinase, a metabolic sensor powering glycolysis, drives the metabolic control of DNA replication

BACKGROUND: In all living organisms, DNA replication is exquisitely regulated in a wide range of growth conditions to achieve timely and accurate genome duplication prior to cell division. Failures in this regulation cause DNA damage with potentially disastrous consequences ...

2022-04-19 | MTBLS4415 | MetaboLights
TranscriptomicsTranscription Initiation Activity Sets Replication Origin Efficiency in Mammalian Cells
Genomic mapping of DNA replication origins (ORIs) in mammals provides a powerful means for understanding the regulatory complexity of our genome. Here we combine a genome-wide approach to identify preferential sites of DNA replication initiation at 0.4% of the mouse genome with detailed molecular an...
ORGANISM(S): Mus musculus 
2010-05-22 | E-GEOD-15082 | biostudies-arrayexpress
TranscriptomicsRif1 regulates initiation timing of late replication origins throughout the S. cerevisiae genome [ChIP-Seq]
Chromosomal DNA replication involves the coordinated activity of hundreds to thousands of replication origins. Individual replication origins are subject to epigenetic regulation of their activity during S-phase, resulting in differential efficiencies and timings of replication initiation during S-...
ORGANISM(S): Saccharomyces cerevisiae 
2014-06-01 | E-GEOD-55155 | biostudies-arrayexpress
TranscriptomicsRif1 regulates initiation timing of late replication origins throughout the S. cerevisiae genome [array]
Chromosomal DNA replication involves the coordinated activity of hundreds to thousands of replication origins. Individual replication origins are subject to epigenetic regulation of their activity during S-phase, resulting in differential efficiencies and timings of replication initiation during S-...
ORGANISM(S): Saccharomyces cerevisiae 
2014-06-01 | E-GEOD-55130 | biostudies-arrayexpress
TranscriptomicsComplex patterns of accessibility discriminate sites of PcG repression, H4K16 acetylation and replication initiation
Full title: Complex patterns of genome accessibility discriminate sites of PcG repression, H4K16 acetylation and replication initiation Histone modifications have been proposed to regulate gene expression in part by modulating DNA accessibility and higher-order chromatin structure. However, there i...
ORGANISM(S): Drosophila melanogaster 
2010-03-16 | E-GEOD-17697 | biostudies-arrayexpress
ModelsGidvani2012 - DNA replication initiation model in S. Cevevisiae
A quantitative model of the initiation of DNA replication in Saccharomyces cerevisiae predicts the effects of system perturbations. Model is encoded by Matthew Maire and submitted in BioModels by Krishna Kumar Tiwari.
2020-05-06 | MODEL2003180001 | BioModels
TranscriptomicsReplication initiation sites in cancer cells
Reads from massively parallel sequencing of RNA primed, short nascent strands from asynchronously growing cancer cells (K562, MCF7). Newly replicated DNA was isolated based on size (400-800 bp) and the presence of a short RNA stretch at the 5' end using lambda exonuclease. Purified nascent strands w...
ORGANISM(S): Homo sapiens 
2011-08-02 | E-GEOD-28911 | biostudies-arrayexpress
TranscriptomicsGenome-wide Profiling of DNA Replication Timing in pombe.
DNA replication is initiated at multiple sites or origins enriched with AT-rich sequences at various times during the S-phase. While current studies of genome-wide DNA replication profiles have focused on the timing of replication and the location of origins, the efficiency of replication/firing at...
ORGANISM(S): Schizosaccharomyces pombe 
2007-08-14 | E-GEOD-6977 | biostudies-arrayexpress
ProteomicsConvergence of SIRT1 and ATR signaling to modulate replication origin dormancy
SIRT1 chromatin interactome analysis was performed to identify SIRT1 molecular targets involved in replication initiation from cells containing either WT or H363Y SIRT1. Co-IP-MS of pT530 SIRT1 from chromatin extracts was performed. Files are: 1422 WT SIRT1 untreated U2OS; 1423 WT SIRT1 H2O2 treated...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000088103 | MassIVE
TranscriptomicsSingle-Stranded Annealing Induced by Re-Initiation of Replication Origins Provides a Novel and Efficient Mechanism for Generating Copy Number Expansion via Non-Allelic Homologous Recombination.
Copy number expansions such as amplifications and duplications contribute to human phenotypic variation, promote molecular diversification during evolution, and drive the initiation and/or progression of various cancers. The mechanisms underlying these copy number changes are still incompletely unde...
ORGANISM(S): Saccharomyces cerevisiae 
2013-01-04 | E-GEOD-41259 | biostudies-arrayexpress
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