ReviewCurrent opinion in genetics & development2009
Replication timing and transcriptional control: beyond cause and effect--part II.
Review in Current opinion in genetics & development, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 98 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
98 citing papers in PubMed, 137 citations in OpenAlex.
- Parallel analysis of replication timing, gene expression, and copy number with PARTAGE.Genome research · 2026Article
- Personalized Morphology, Replication Timing, and RNA based Gene Expression Networks for Basal-like and Classical subtyping genes in Pancreatic Adenocarcinoma.bioRxiv : the preprint server for biology · 2026Article
- Article
- The long-standing relationship between replication timing, gene expression, and chromatin accessibility is maintained in early mouse embryogenesis.bioRxiv : the preprint server for biology · 2025Article
- PARTAGE: Parallel analysis of replication timing and gene expression.bioRxiv : the preprint server for biology · 2025Article
- Cyclin dependent kinase 9 inhibitor induces transcription-replication conflicts and DNA damage accumulation in breast cancer.Cancer cell international · 2025Article
- Histone variant macroH2A1 regulates synchronous firing of replication origins in the inactive X chromosome.Nucleic acids research · 2024Article
- The C-terminal 4CXXC-type zinc finger domain of CDCA7 recognizes hemimethylated DNA and modulates activities of chromatin remodeling enzyme HELLS.Nucleic acids research · 2024Article
- Strand asymmetries across genomic processes.Computational and structural biotechnology journal · 2023Review
- Review
- SALL4 controls cell fate in response to DNA base composition.Molecular cell · 2021Article
- A genome-scale map of DNA methylation turnover identifies site-specific dependencies of DNMT and TET activity.Nature communications · 2020Article
- Control of DNA replication timing in the 3D genome.Nature reviews. Molecular cell biology · 2019Review
- Replication timing alterations in leukemia affect clinically relevant chromosome domains.Blood advances · 2019Article
- RT States: systematic annotation of the human genome using cell type-specific replication timing programs.Bioinformatics (Oxford, England) · 2019Article
- Review
- Genome-wide stability of the DNA replication program in single mammalian cells.Nature genetics · 2019Article
- Article
- Germline DNA replication timing shapes mammalian genome composition.Nucleic acids research · 2018Article
- 53BP1 Mediates ATR-Chk1 Signaling and Protects Replication Forks under Conditions of Replication Stress.Molecular and cellular biology · 2018Article
38 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Replication timing is frequently discussed superficially in terms of its relationship to transcriptional activity via chromatin structure. However, so little is known about what regulates where and when replication initiates that it has been impossible to identify mechanistic and causal relationships. Moreover, much of our knowledge base has been anecdotal, derived from analyses of a few genes in unrelated cell lines. Recent studies have revisited long-standing hypotheses using genome-wide approaches. In particular, the foundation of this field was recently shored up with incontrovertible evidence that cellular differentiation is accompanied by coordinated changes in replication timing and transcription. These changes accompany subnuclear repositioning, and take place at the level of megabase-sized domains that transcend localized changes in chromatin structure or transcription. Inferring from these results, we propose that there exists a key transition during the middle of S-phase and that changes in replication timing traversing this period are associated with subnuclear repositioning and changes in the activity of certain classes of promoters.
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What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.