ArticleNucleic acids research2018
Germline DNA replication timing shapes mammalian genome composition.
Article in Nucleic acids research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 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.
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Who cites it
27 citing papers in PubMed, 36 citations in OpenAlex.
- Effect of methylation on genome mutability in cattle.Genetics, selection, evolution : GSE · 2026Article
- Asymmetric Chromosome Establishment and Segregation During Germline Stem Cell Division.Advances in experimental medicine and biology · 2026Review
- ResNet-Powered Multi-Class Identification of Sequence Patterns for Genome Replication Timing Analysis.Interdisciplinary sciences, computational life sciences · 2025Article
- Mitigating Cell Cycle Effects in Multi-Omics Data: Solutions and Analytical Frameworks.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Insights into the evolution and regulation of miRNAs from the view of their DNA replication temporal domains.Frontiers in genetics · 2025Article
- Unveiling the mysteries of extrachromosomal circular DNA: from generation to clinical relevance in human cancers and health.Molecular cancer · 2024Review
- DNA replication in early mammalian embryos is patterned, predisposing lamina-associated regions to fragility.Nature communications · 2024Article
- Emergence of enhancers at late DNA replicating regions.Nature communications · 2024Article
- A Cyclic Permutation Approach to Removing Spatial Dependency between Clustered Gene Ontology Terms.Biology · 2024Article
- DNA replication in early mammalian embryos is patterned, predisposing lamina-associated regions to fragility.bioRxiv : the preprint server for biology · 2023Article
- Cell-type specificity of the human mutation landscape with respect to DNA replication dynamics.Cell genomics · 2023Article
- Characterization of Unidirectional Replication Forks in the Mouse Genome.International journal of molecular sciences · 2023Article
- Optimized Repli-seq: improved DNA replication timing analysis by next-generation sequencing.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2022Article
- Mitotic H3K9ac is controlled by phase-specific activity of HDAC2, HDAC3, and SIRT1.Life science alliance · 2022Article
- Article
- Gene expression levels modulate germline mutation rates through the compound effects of transcription-coupled repair and damage.Human genetics · 2022Article
- Chromosomal Mcm2-7 distribution and the genome replication program in species from yeast to humans.PLoS genetics · 2021Article
- Hotspots of Human Mutation.Trends in genetics : TIG · 2021Review
- Chromosomal coordination and differential structure of asynchronous replicating regions.Nature communications · 2021Article
- Human L1 Transposition Dynamics Unraveled with Functional Data Analysis.Molecular biology and evolution · 2020Article
Corrections and comments
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Authors and funding
15 authors at 3 institutions in 2 countries.
Funding
Abstract
Mammalian DNA replication is a highly organized and regulated process. Large, Mb-sized regions are replicated at defined times along S-phase. Replication Timing (RT) is thought to play a role in shaping the mammalian genome by affecting mutation rates. Previous analyses relied on somatic RT profiles. However, only germline mutations are passed on to offspring and affect genomic composition. Therefore, germ cell RT information is necessary to evaluate the influences of RT on the mammalian genome. We adapted the RT mapping technique for limited amounts of cells, and measured RT from two stages in the mouse germline - primordial germ cells (PGCs) and spermatogonial stem cells (SSCs). RT in germline cells exhibited stronger correlations to both mutation rate and recombination hotspots density than those of RT in somatic tissues, emphasizing the importance of using correct tissues-of-origin for RT profiling. Germline RT maps exhibited stronger correlations to additional genetic features including GC-content, transposable elements (SINEs and LINEs), and gene density. GC content stratification and multiple regression analysis revealed independent contributions of RT to SINE, gene, mutation, and recombination hotspot densities. Together, our results establish a central role for RT in shaping multiple levels of mammalian genome composition.
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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 Socratic graph.