ArticleCell reports2014
The distribution of genomic variations in human iPSCs is related to replication-timing reorganization during reprogramming.
Article in Cell reports, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 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.
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Who cites it
20 citing papers in PubMed, 30 citations in OpenAlex.
- Mitigating Cell Cycle Effects in Multi-Omics Data: Solutions and Analytical Frameworks.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Reconstruction of Segmental Duplication Rates and Associated Genomic Features by Network Analysis.Genome biology and evolution · 2025Article
- Incomplete reprogramming of DNA replication timing in induced pluripotent stem cells.Cell reports · 2024Article
- Locus-specific transcription silencing at the FHIT gene suppresses replication stress-induced copy number variant formation and associated replication delay.Nucleic acids research · 2021Article
- Replication Stress, Genomic Instability, and Replication Timing: A Complex Relationship.International journal of molecular sciences · 2021Review
- Detection of base analogs incorporated during DNA replication by nanopore sequencing.Nucleic acids research · 2020Article
- Copy number variant hotspots in Han Taiwanese population induced pluripotent stem cell lines - lessons from establishing the Taiwan human disease iPSC Consortium Bank.Journal of biomedical science · 2020Article
- Control of DNA replication timing in the 3D genome.Nature reviews. Molecular cell biology · 2019Review
- Linking the organization of DNA replication with genome maintenance.Current genetics · 2019Review
- Insights into the Link between the Organization of DNA Replication and the Mutational Landscape.Genes · 2019Review
- New considerations for hiPSC-based models of neuropsychiatric disorders.Molecular psychiatry · 2019Review
- Perturbations in the Replication Program Contribute to Genomic Instability in Cancer.International journal of molecular sciences · 2017Review
- Divergent Levels of Marker Chromosomes in an hiPSC-Based Model of Psychosis.Stem cell reports · 2017Article
- The inhibition of TDP-43 mitochondrial localization blocks its neuronal toxicity.Nature medicine · 2016Article
- Kataegis Expression Signature in Breast Cancer Is Associated with Late Onset, Better Prognosis, and Higher HER2 Levels.Cell reports · 2016Article
- Influence of ATM-Mediated DNA Damage Response on Genomic Variation in Human Induced Pluripotent Stem Cells.Stem cells and development · 2016Article
- From "directed differentiation" to "neuronal induction": modeling neuropsychiatric disease.Biomarker insights · 2015Review
- Genome architecture and its roles in human copy number variation.Genomics & informatics · 2014Review
- Passage number is a major contributor to genomic structural variations in mouse iPSCs.Stem cells (Dayton, Ohio) · 2014Article
- Abnormal dosage of ultraconserved elements is highly disfavored in healthy cells but not cancer cells.PLoS genetics · 2014Article
Corrections and comments
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Authors and funding
9 authors at 4 institutions in 1 country.
Funding
Abstract
Cell-fate change involves significant genome reorganization, including changes in replication timing, but how these changes are related to genetic variation has not been examined. To study how a change in replication timing that occurs during reprogramming impacts the copy-number variation (CNV) landscape, we generated genome-wide replication-timing profiles of induced pluripotent stem cells (iPSCs) and their parental fibroblasts. A significant portion of the genome changes replication timing as a result of reprogramming, indicative of overall genome reorganization. We found that early- and late-replicating domains in iPSCs are differentially affected by copy-number gains and losses and that in particular, CNV gains accumulate in regions of the genome that change to earlier replication during the reprogramming process. This differential relationship was present irrespective of reprogramming method. Overall, our findings reveal a functional association between reorganization of replication timing and the CNV landscape that emerges during reprogramming.
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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.