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Title
Genomic methods for measuring DNA replication dynamics
Authors
Keywords
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Journal
CHROMOSOME RESEARCH
Volume -, Issue -, Pages -
Publisher
Springer Science and Business Media LLC
Online
2019-12-17
DOI
10.1007/s10577-019-09624-y
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Note: Only part of the references are listed.- Insights into the Link between the Organization of DNA Replication and the Mutational Landscape
- (2019) Julia Gaboriaud et al. Genes
- Replication timing and epigenome remodelling are associated with the nature of chromosomal rearrangements in cancer
- (2019) Qian Du et al. Nature Communications
- Evolution of replication origins in vertebrate genomes: rapid turnover despite selective constraints
- (2019) Florian Massip et al. NUCLEIC ACIDS RESEARCH
- Genome-wide stability of the DNA replication program in single mammalian cells
- (2019) Saori Takahashi et al. NATURE GENETICS
- Differences in firing efficiency, chromatin and transcription underlie the developmental plasticity of the Arabidopsis DNA replication origins
- (2019) Joana Sequeira-Mendes et al. GENOME RESEARCH
- Capturing the dynamics of genome replication on individual ultra-long nanopore sequence reads
- (2019) Carolin A. Müller et al. NATURE METHODS
- Next-Generation Sequencing Enables Spatiotemporal Resolution of Human Centromere Replication Timing
- (2019) Dashiell J. Massey et al. Genes
- Involvement of G-quadruplex regions in mammalian replication origin activity
- (2019) Paulina Prorok et al. Nature Communications
- High-Throughput Single-Cell Sequencing with Linear Amplification
- (2019) Yi Yin et al. MOLECULAR CELL
- Single-cell DNA replication profiling identifies spatiotemporal developmental dynamics of chromosome organization
- (2019) Hisashi Miura et al. NATURE GENETICS
- Clonal Decomposition and DNA Replication States Defined by Scaled Single-Cell Genome Sequencing
- (2019) Emma Laks et al. CELL
- The effects of manipulating levels of replication initiation factors on origin firing efficiency in yeast
- (2019) Kelsey L. Lynch et al. PLoS Genetics
- Allele-specific control of replication timing and genome organization during development
- (2018) Juan Carlos Rivera-Mulia et al. GENOME RESEARCH
- Germline DNA replication timing shapes mammalian genome composition
- (2018) Yishai Yehuda et al. NUCLEIC ACIDS RESEARCH
- Genome-wide analysis of the spatiotemporal regulation of firing and dormant replication origins in human cells
- (2018) Nozomi Sugimoto et al. NUCLEIC ACIDS RESEARCH
- Genome-Wide Analysis of the Arabidopsis Replication Timing Program
- (2018) Lorenzo Concia et al. PLANT PHYSIOLOGY
- The evolution of the temporal program of genome replication
- (2018) Nicolas Agier et al. Nature Communications
- Single-cell replication profiling to measure stochastic variation in mammalian replication timing
- (2018) Vishnu Dileep et al. Nature Communications
- Chromatin conformation regulates the coordination between DNA replication and transcription
- (2018) Ricardo Almeida et al. Nature Communications
- Circular DNA elements of chromosomal origin are common in healthy human somatic tissue
- (2018) Henrik Devitt Møller et al. Nature Communications
- Unscheduled DNA synthesis leads to elevated uracil residues at highly transcribed genomic loci in Saccharomyces cerevisiae
- (2018) Norah Owiti et al. PLoS Genetics
- Dual Roles of Poly(dA:dT) Tracts in Replication Initiation and Fork Collapse
- (2018) Anthony Tubbs et al. CELL
- Molecular architecture of G-quadruplex structures generated on duplex Rif1 binding sequences
- (2018) Hisao Masai et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Intragenic origins due to short G1 phases underlie oncogene-induced DNA replication stress
- (2018) Morgane Macheret et al. NATURE
- Developmental and cancer-associated plasticity of DNA replication preferentially targets GC-poor, lowly expressed and late-replicating regions
- (2018) Xia Wu et al. NUCLEIC ACIDS RESEARCH
- MCM2 promotes symmetric inheritance of modified histones during DNA replication
- (2018) Nataliya Petryk et al. SCIENCE
- Quantification of somatic mutation flow across individual cell division events by lineage sequencing
- (2018) Yehuda Brody et al. GENOME RESEARCH
- Transcription shapes DNA replication initiation and termination in human cells
- (2018) Yu-Hung Chen et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- The non-canonical SMC protein SmcHD1 antagonises TAD formation and compartmentalisation on the inactive X chromosome
- (2018) Michal R. Gdula et al. Nature Communications
- DNA replication timing during development anticipates transcriptional programs and parallels enhancer activation
- (2017) Joseph C. Siefert et al. GENOME RESEARCH
- Genome-wide maps of alkylation damage, repair, and mutagenesis in yeast reveal mechanisms of mutational heterogeneity
- (2017) Peng Mao et al. GENOME RESEARCH
- MTBP, the partner of Treslin, contains a novel DNA-binding domain that is essential for proper initiation of DNA replication
- (2017) Akiko Kumagai et al. MOLECULAR BIOLOGY OF THE CELL
- Sequencing thousands of single-cell genomes with combinatorial indexing
- (2017) Sarah A Vitak et al. NATURE METHODS
- Scalable whole-genome single-cell library preparation without preamplification
- (2017) Hans Zahn et al. NATURE METHODS
- Single-cell whole-genome analyses by Linear Amplification via Transposon Insertion (LIANTI)
- (2017) Chongyi Chen et al. SCIENCE
- Non‐Canonical Replication Initiation: You’re Fired!
- (2017) Bazilė Ravoitytė et al. Genes
- Mutational Strand Asymmetries in Cancer Genomes Reveal Mechanisms of DNA Damage and Repair
- (2016) Nicholas J. Haradhvala et al. CELL
- DNA replication origins—where do we begin?
- (2016) Marie-Noëlle Prioleau et al. GENES & DEVELOPMENT
- Quantitative BrdU immunoprecipitation method demonstrates that Fkh1 and Fkh2 are rate-limiting activators of replication origins that reprogram replication timing in G1 phase
- (2016) Jared M. Peace et al. GENOME RESEARCH
- Model-based analysis of DNA replication profiles: predicting replication fork velocity and initiation rate by profiling free-cycling cells
- (2016) Ariel Gispan et al. GENOME RESEARCH
- Single-molecule, antibody-free fluorescent visualisation of replication tracts along barcoded DNA molecules
- (2016) Francesco De Carli et al. INTERNATIONAL JOURNAL OF DEVELOPMENTAL BIOLOGY
- DNA Breaks and End Resection Measured Genome-wide by End Sequencing
- (2016) Andres Canela et al. MOLECULAR CELL
- Order from clutter: selective interactions at mammalian replication origins
- (2016) Mirit I. Aladjem et al. NATURE REVIEWS GENETICS
- Single-cell genome sequencing: current state of the science
- (2016) Charles Gawad et al. NATURE REVIEWS GENETICS
- Processing ribonucleotides incorporated during eukaryotic DNA replication
- (2016) Jessica S. Williams et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Selectivity of ORC binding sites and the relation to replication timing, fragile sites, and deletions in cancers
- (2016) Benoit Miotto et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Analysis of DNA Replication by Optical Mapping in Nanochannels
- (2016) Joris Lacroix et al. Small
- Distinct epigenetic features of differentiation-regulated replication origins
- (2016) Owen K. Smith et al. Epigenetics & Chromatin
- Replication landscape of the human genome
- (2016) Nataliya Petryk et al. Nature Communications
- Transcriptionally Driven DNA Replication Program of the Human Parasite Leishmania major
- (2016) Rodrigo Lombraña et al. Cell Reports
- Folate levels modulate oncogene-induced replication stress and tumorigenicity
- (2015) N. Lamm et al. EMBO Molecular Medicine
- Genome-wide analysis of human global and transcription-coupled excision repair of UV damage at single-nucleotide resolution
- (2015) Jinchuan Hu et al. GENES & DEVELOPMENT
- Effect of minichromosome maintenance protein 2 deficiency on the locations of DNA replication origins
- (2015) Dimiter Kunnev et al. GENOME RESEARCH
- Characterizing and controlling intrinsic biases of lambda exonuclease in nascent strand sequencing reveals phasing between nucleosomes and G-quadruplex motifs around a subset of human replication origins
- (2015) Michael S. Foulk et al. GENOME RESEARCH
- The chromatin environment shapes DNA replication origin organization and defines origin classes
- (2015) Christelle Cayrou et al. GENOME RESEARCH
- Dynamic changes in replication timing and gene expression during lineage specification of human pluripotent stem cells
- (2015) Juan Carlos Rivera-Mulia et al. GENOME RESEARCH
- Peaks cloaked in the mist: The landscape of mammalian replication origins
- (2015) Olivier Hyrien JOURNAL OF CELL BIOLOGY
- Lagging-strand replication shapes the mutational landscape of the genome
- (2015) Martin A. M. Reijns et al. NATURE
- Tracking replication enzymology in vivo by genome-wide mapping of ribonucleotide incorporation
- (2015) Anders R Clausen et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- A global profile of replicative polymerase usage
- (2015) Yasukazu Daigaku et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Ribonucleotides in DNA: hidden in plain sight
- (2015) Sue Jinks-Robertson et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Role for RNA:DNA hybrids in origin-independent replication priming in a eukaryotic system
- (2015) Ruth Stuckey et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- T cell help controls the speed of the cell cycle in germinal center B cells
- (2015) A. D. Gitlin et al. SCIENCE
- Allele-specific analysis of DNA replication origins in mammalian cells
- (2015) Boris Bartholdy et al. Nature Communications
- ChEC-seq kinetics discriminates transcription factor binding sites by DNA sequence and shape in vivo
- (2015) Gabriel E. Zentner et al. Nature Communications
- Tracking replication enzymology in vivo by genome-wide mapping of ribonucleotide incorporation
- (2015) Anders R Clausen et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- A global profile of replicative polymerase usage
- (2015) Yasukazu Daigaku et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Ribonucleotides in DNA: hidden in plain sight
- (2015) Sue Jinks-Robertson et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- High-Resolution Profiling of Drosophila Replication Start Sites Reveals a DNA Shape and Chromatin Signature of Metazoan Origins
- (2015) Federico Comoglio et al. Cell Reports
- Checkpoint-independent scaling of the Saccharomyces cerevisiaeDNA replication program
- (2014) Ariel Gispan et al. BMC BIOLOGY
- Genetic Variation in Human DNA Replication Timing
- (2014) Amnon Koren et al. CELL
- G4 motifs affect origin positioning and efficiency in two vertebrate replicators
- (2014) A.-L. Valton et al. EMBO JOURNAL
- High resolution mapping of modified DNA nucleobases using excision repair enzymes
- (2014) D. Suzi Bryan et al. GENOME RESEARCH
- Exonuclease mutations in DNA polymerase epsilon reveal replication strand specific mutation patterns and human origins of replication
- (2014) Eve Shinbrot et al. GENOME RESEARCH
- Chromosome fragility and the abnormal replication of the FMR1 locus in fragile X syndrome
- (2014) Dmitry Yudkin et al. HUMAN MOLECULAR GENETICS
- The Histone Deacetylases Sir2 and Rpd3 Act on Ribosomal DNA to Control the Replication Program in Budding Yeast
- (2014) Kazumasa Yoshida et al. MOLECULAR CELL
- Topologically associating domains are stable units of replication-timing regulation
- (2014) Benjamin D. Pope et al. NATURE
- The intrinsically disordered amino-terminal region of human RecQL4: multiple DNA-binding domains confer annealing, strand exchange and G4 DNA binding
- (2014) Heidi Keller et al. NUCLEIC ACIDS RESEARCH
- Polycomb proteins control proliferation and transformation independently of cell cycle checkpoints by regulating DNA replication
- (2014) Andrea Piunti et al. Nature Communications
- Allele-Specific Genome-wide Profiling in Human Primary Erythroblasts Reveal Replication Program Organization
- (2014) Rituparna Mukhopadhyay et al. PLoS Genetics
- The Spatiotemporal Program of DNA Replication Is Associated with Specific Combinations of Chromatin Marks in Human Cells
- (2014) Franck Picard et al. PLoS Genetics
- GC-Rich DNA Elements Enable Replication Origin Activity in the Methylotrophic Yeast Pichia pastoris
- (2014) Ivan Liachko et al. PLoS Genetics
- A unique epigenetic signature is associated with active DNA replication loci in human embryonic stem cells
- (2013) Bing Li et al. Epigenetics
- Next-generation sequencing of Okazaki fragments extracted fromSaccharomyces cerevisiae
- (2013) Wenchao Yanga et al. FEBS LETTERS
- Random replication of the inactive X chromosome
- (2013) A. Koren et al. GENOME RESEARCH
- Bubble-seq analysis of the human genome reveals distinct chromatin-mediated mechanisms for regulating early- and late-firing origins
- (2013) Larry D. Mesner et al. GENOME RESEARCH
- Human Origin Recognition Complex Binds Preferentially to G-quadruplex-preferable RNA and Single-stranded DNA
- (2013) Shoko Hoshina et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- The Replication Domain Model: Regulating Replicon Firing in the Context of Large-Scale Chromosome Architecture
- (2013) Benjamin D. Pope et al. JOURNAL OF MOLECULAR BIOLOGY
- Quantitative, Genome-Wide Analysis of Eukaryotic Replication Initiation and Termination
- (2013) Sean R. McGuffee et al. MOLECULAR CELL
- Avoiding chromosome pathology when replication forks collide
- (2013) Christian J. Rudolph et al. NATURE
- Genome-wide copy number profiling of single cells in S-phase reveals DNA-replication domains
- (2013) Niels Van der Aa et al. NUCLEIC ACIDS RESEARCH
- The dynamics of genome replication using deep sequencing
- (2013) Carolin A. Müller et al. NUCLEIC ACIDS RESEARCH
- DNA Replication Timing
- (2013) N. Rhind et al. Cold Spring Harbor Perspectives in Biology
- Differential Relationship of DNA Replication Timing to Different Forms of Human Mutation and Variation
- (2012) Amnon Koren et al. AMERICAN JOURNAL OF HUMAN GENETICS
- Forkhead Transcription Factors Establish Origin Timing and Long-Range Clustering in S. cerevisiae
- (2012) Simon R.V. Knott et al. CELL
- Genome-wide mapping of human DNA-replication origins: Levels of transcription at ORC1 sites regulate origin selection and replication timing
- (2012) G. I. Dellino et al. GENOME RESEARCH
- Conservation of replication timing reveals global and local regulation of replication origin activity
- (2012) C. A. Muller et al. GENOME RESEARCH
- High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast
- (2012) I. Liachko et al. GENOME RESEARCH
- Intrinsic coupling of lagging-strand synthesis to chromatin assembly
- (2012) Duncan J. Smith et al. NATURE
- Unraveling cell type–specific and reprogrammable human replication origin signatures associated with G-quadruplex consensus motifs
- (2012) Emilie Besnard et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Genome-Wide Detection of Single-Nucleotide and Copy-Number Variations of a Single Human Cell
- (2012) C. Zong et al. SCIENCE
- Extrachromosomal MicroDNAs and Chromosomal Microdeletions in Normal Tissues
- (2012) Y. Shibata et al. SCIENCE
- Nucleotide Deficiency Promotes Genomic Instability in Early Stages of Cancer Development
- (2011) Assaf C. Bester et al. CELL
- Temporal differences in DNA replication during the S phase using single fiber analysis of normal human fibroblasts and glioblastoma T98G cells
- (2011) Rebecca A. Frum et al. CELL CYCLE
- Origin Association of Sld3, Sld7, and Cdc45 Proteins Is a Key Step for Determination of Origin-Firing Timing
- (2011) Seiji Tanaka et al. CURRENT BIOLOGY
- Limiting replication initiation factors execute the temporal programme of origin firing in budding yeast
- (2011) Davide Mantiero et al. EMBO JOURNAL
- Genome-wide depletion of replication initiation events in highly transcribed regions
- (2011) M. M. Martin et al. GENOME RESEARCH
- Genome-scale analysis of metazoan replication origins reveals their organization in specific but flexible sites defined by conserved features
- (2011) C. Cayrou et al. GENOME RESEARCH
- Cdc45 Limits Replicon Usage from a Low Density of preRCs in Mammalian Cells
- (2011) Philip G. Wong et al. PLoS One
- Evidence for Sequential and Increasing Activation of Replication Origins along Replication Timing Gradients in the Human Genome
- (2011) Guillaume Guilbaud et al. PLoS Computational Biology
- Impact of replication timing on non-CpG and CpG substitution rates in mammalian genomes
- (2010) C. L. Chen et al. GENOME RESEARCH
- MRC1-dependent scaling of the budding yeast DNA replication timing program
- (2010) A. Koren et al. GENOME RESEARCH
- Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types
- (2010) T. Ryba et al. GENOME RESEARCH
- Modeling genome-wide replication kinetics reveals a mechanism for regulation of replication timing
- (2010) Scott Cheng-Hsin Yang et al. Molecular Systems Biology
- Mathematical modelling of whole chromosome replication
- (2010) Alessandro P. S. de Moura et al. NUCLEIC ACIDS RESEARCH
- Comparative Analysis of DNA Replication Timing Reveals Conserved Large-Scale Chromosomal Architecture
- (2010) Eitan Yaffe et al. PLoS Genetics
- Epigenetically-Inherited Centromere and Neocentromere DNA Replicates Earliest in S-Phase
- (2010) Amnon Koren et al. PLoS Genetics
- Reconciling stochastic origin firing with defined replication timing
- (2009) Nicholas Rhind et al. CHROMOSOME RESEARCH
- Genome-wide analysis of the replication program in mammals
- (2009) Shlomit Farkash-Amar et al. CHROMOSOME RESEARCH
- Molecular analysis of the replication program in unicellular model organisms
- (2009) M. K. Raghuraman et al. CHROMOSOME RESEARCH
- Long-Range Bidirectional Strand Asymmetries Originate at CpG Islands in the Human Genome
- (2009) Paz Polak et al. Genome Biology and Evolution
- Predictable dynamic program of timing of DNA replication in human cells
- (2009) R. Desprat et al. GENOME RESEARCH
- Drosophila ORC localizes to open chromatin and marks sites of cohesin complex loading
- (2009) H. K. MacAlpine et al. GENOME RESEARCH
- Genomic Study of Replication Initiation in Human Chromosomes Reveals the Influence of Transcription Regulation and Chromatin Structure on Origin Selection
- (2009) Neerja Karnani et al. MOLECULAR BIOLOGY OF THE CELL
- Continuous base identification for single-molecule nanopore DNA sequencing
- (2009) James Clarke et al. Nature Nanotechnology
- Sequencing newly replicated DNA reveals widespread plasticity in human replication timing
- (2009) R. S. Hansen et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Transcription Initiation Activity Sets Replication Origin Efficiency in Mammalian Cells
- (2009) Joana Sequeira-Mendes et al. PLoS Genetics
- Global organization of replication time zones of the mouse genome
- (2008) S. Farkash-Amar et al. GENOME RESEARCH
- The replisome uses mRNA as a primer after colliding with RNA polymerase
- (2008) Richard T. Pomerantz et al. NATURE
- DNA replication timing is deterministic at the level of chromosomal domains but stochastic at the level of replicons in Xenopus egg extracts
- (2008) H. Labit et al. NUCLEIC ACIDS RESEARCH
- Genome-wide studies highlight indirect links between human replication origins and gene regulation
- (2008) J.-C. Cadoret et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Global Reorganization of Replication Domains During Embryonic Stem Cell Differentiation
- (2008) Ichiro Hiratani et al. PLOS BIOLOGY
- DNA Combing Reveals Intrinsic Temporal Disorder in the Replication of Yeast Chromosome VI
- (2007) Daniel M. Czajkowsky et al. JOURNAL OF MOLECULAR BIOLOGY
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