Epigenetic landscape for initiation of DNA replication

Regulation of DNA replication timing

(2013) T. D. Kolesnikova   MOLECULAR BIOLOGY

DNA Replication Timing

(2013) N. Rhind et al.   Cold Spring Harbor Perspectives in Biology

Forkhead Transcription Factors Establish Origin Timing and Long-Range Clustering in S. cerevisiae

(2012) Simon R.V. Knott et al.   CELL

New insights into replication origin characteristics in metazoans

(2012) Christelle Cayrou et al.   CELL CYCLE

The histone acetyltransferases CBP and Chameau integrate developmental and DNA replication programs in Drosophila ovarian follicle cells

(2012) K. H. McConnell et al.   DEVELOPMENT

The role of PR-Set7 in replication licensing depends on Suv4-20h

(2012) D. B. Beck et al.   GENES & DEVELOPMENT

Forced binding of the origin of replication complex to chromosomal sites in Drosophila S2 cells creates an origin of replication

(2012) Gilles Crevel et al.   JOURNAL OF CELL SCIENCE

The BAH domain of ORC1 links H4K20me2 to DNA replication licensing and Meier–Gorlin syndrome

(2012) Alex J. Kuo 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

The epigenetic control of E-box and Myc-dependent chromatin modifications regulate the licensing of lamin B2 origin during cell cycle

(2012) Manickavinayaham Swarnalatha et al.   NUCLEIC ACIDS RESEARCH

Genome-wide analysis of histone H3.1 and H3.3 variants in Arabidopsis thaliana

(2012) H. Stroud et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative analysis of the molecular mechanisms controlling the initiation of chromosomal DNA replication in yeast and in mammalian cells

(2011) Elena Sacco et al.   BIOTECHNOLOGY ADVANCES

The homeotic protein HOXC13 is a member of human DNA replication complexes

(2011) Laura Comelli et al.   CELL CYCLE

Genome-wide depletion of replication initiation events in highly transcribed regions

(2011) M. M. Martin et al.   GENOME RESEARCH

Developmental control of gene copy number by repression of replication initiation and fork progression

(2011) N. Sher 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

Chromatin Remodeler Sucrose Nonfermenting 2 Homolog (SNF2H) Is Recruited onto DNA Replication Origins through Interaction with Cdc10 Protein-dependent Transcript 1 (Cdt1) and Promotes Pre-replication Complex Formation

(2011) Nozomi Sugimoto et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cdc6 expression represses E-cadherin transcription and activates adjacent replication origins

(2011) Maria Sideridou et al.   JOURNAL OF CELL BIOLOGY

Histone H4K20me3 and HP1  are late heterochromatin markers in development, but present in undifferentiated embryonic stem cells

(2011) T. Wongtawan et al.   JOURNAL OF CELL SCIENCE

Analysis of model replication origins in Drosophila reveals new aspects of the chromatin landscape and its relationship to origin activity and the prereplicative complex

(2011) Jun Liu et al.   MOLECULAR BIOLOGY OF THE CELL

Nuclear Scaffold Attachment Sites within ENCODE Regions Associate with Actively Transcribed Genes

(2011) Mignon A. Keaton et al.   PLoS One

Cdc45 Limits Replicon Usage from a Low Density of preRCs in Mammalian Cells

(2011) Philip G. Wong et al.   PLoS One

Preferential Localization of Human Origins of DNA Replication at the 5′-Ends of Expressed Genes and at Evolutionarily Conserved DNA Sequences

(2011) Manuel S. Valenzuela 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

Quantitative Interaction Proteomics and Genome-wide Profiling of Epigenetic Histone Marks and Their Readers

(2010) Michiel Vermeulen et al.   CELL

Chromatin unfolding by Cdt1 regulates MCM loading via opposing functions of HBO1 and HDAC11-geminin

(2010) Philip G. Wong et al.   CELL CYCLE

Replication timing as an epigenetic mark

(2010) Ichiro Hiratani et al.   Epigenetics

Cohesin organizes chromatin loops at DNA replication factories

(2010) E. Guillou et al.   GENES & DEVELOPMENT

Conserved nucleosome positioning defines replication origins

(2010) M. L. Eaton et al.   GENES & DEVELOPMENT

Heterochromatin protein 1 (HP1) modulates replication timing of the Drosophila genome

(2010) M. Schwaiger 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

Sequence features that drive human promoter function and tissue specificity

(2010) J. M. Landolin et al.   GENOME RESEARCH

Bubble-chip analysis of human origin distributions demonstrates on a genomic scale significant clustering into zones and significant association with transcription

(2010) L. D. Mesner et al.   GENOME RESEARCH

Chromatin signatures of the Drosophila replication program

(2010) M. L. Eaton et al.   GENOME RESEARCH

G2 phase chromatin lacks determinants of replication timing

(2010) Junjie Lu et al.   JOURNAL OF CELL BIOLOGY

Single-Molecule Analysis Reveals Changes in the DNA Replication Program for the POU5F1 Locus upon Human Embryonic Stem Cell Differentiation

(2010) S. S. Schultz et al.   MOLECULAR AND CELLULAR BIOLOGY

Guanine quadruplex DNA structure restricts methylation of CpG dinucleotides genome-wide

(2010) Rashi Halder et al.   Molecular BioSystems

HBO1 Histone Acetylase Activity Is Essential for DNA Replication Licensing and Inhibited by Geminin

(2010) Benoit Miotto et al.   MOLECULAR CELL

A WD-Repeat Protein Stabilizes ORC Binding to Chromatin

(2010) Zhen Shen et al.   MOLECULAR CELL

The histone H4 Lys 20 methyltransferase PR-Set7 regulates replication origins in mammalian cells

(2010) Mathieu Tardat et al.   NATURE CELL BIOLOGY

Evaluating genome-scale approaches to eukaryotic DNA replication

(2010) David M. Gilbert   NATURE REVIEWS GENETICS

Homeotic proteins participate in the function of human-DNA replication origins

(2010) Laura Marchetti et al.   NUCLEIC ACIDS RESEARCH

Pre-replication complex proteins assemble at regions of low nucleosome occupancy within the Chinese hamster dihydrofolate reductase initiation zone

(2010) Yoav Lubelsky et al.   NUCLEIC ACIDS RESEARCH

Human origin recognition complex is essential for HP1 binding to chromatin and heterochromatin organization

(2010) S. G. Prasanth et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide Kinetics of Nucleosome Turnover Determined by Metabolic Labeling of Histones

(2010) R. B. Deal et al.   SCIENCE

Comparative Analysis of DNA Replication Timing Reveals Conserved Large-Scale Chromosomal Architecture

(2010) Eitan Yaffe et al.   PLoS Genetics

Diversity of Eukaryotic DNA Replication Origins Revealed by Genome-Wide Analysis of Chromatin Structure

(2010) Nicolas M. Berbenetz et al.   PLoS Genetics

The impact of nucleosome positioning on the organization of replication origins in eukaryotes

(2009) Shanye Yin et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Replicon Dynamics, Dormant Origin Firing, and Terminal Fork Integrity after Double-Strand Break Formation

(2009) Ylli Doksani et al.   CELL

Why are we where we are? Understanding replication origins and initiation sites in eukaryotes using ChIP-approaches

(2009) Aloys Schepers et al.   CHROMOSOME RESEARCH

Mathematical modelling of eukaryotic DNA replication

(2009) Olivier Hyrien et al.   CHROMOSOME RESEARCH

Domain-wide regulation of DNA replication timing during mammalian development

(2009) Benjamin D. Pope et al.   CHROMOSOME RESEARCH

Gene expression profiles of human inner cell mass cells and embryonic stem cells

(2009) Renee A. Reijo Pera et al.   DIFFERENTIATION

Lambda exonuclease digestion of CGG trinucleotide repeats

(2009) R. S. Conroy et al.   EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS

Histone acetyltransferase Hbo1: Catalytic activity, cellular abundance, and links to primary cancers

(2009) Masayoshi Iizuka et al.   GENE

Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis

(2009) I. Hiratani 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

Decreased replication origin activity in temporal transition regions

(2009) Zeqiang Guan et al.   JOURNAL OF CELL BIOLOGY

HOXD13 Binds DNA Replication Origins To Promote Origin Licensing and Is Inhibited by Geminin

(2009) V. Salsi et al.   MOLECULAR AND CELLULAR BIOLOGY

Monomethylation of Histone H4-Lysine 20 Is Involved in Chromosome Structure and Stability and Is Essential for Mouse Development

(2009) H. Oda et al.   MOLECULAR AND CELLULAR BIOLOGY

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

Genome-wide analysis predicts DNA structural motifs as nucleosome exclusion signals

(2009) Kangkan Halder et al.   Molecular BioSystems

Selection for the G4 DNA motif at the 5′ end of human genes

(2009) Johanna Eddy et al.   MOLECULAR CARCINOGENESIS

HBO1 HAT Complexes Target Chromatin throughout Gene Coding Regions via Multiple PHD Finger Interactions with Histone H3 Tail

(2009) Nehmé Saksouk et al.   MOLECULAR CELL

The heterochromatin protein Swi6/HP1 activates replication origins at the pericentromeric region and silent mating-type locus

(2009) Makoto T. Hayashi et al.   NATURE CELL BIOLOGY

Cyclin A-Cdk1 regulates the origin firing program in mammalian cells

(2009) Y. Katsuno et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

(2009) E. Lieberman-Aiden et al.   SCIENCE

Transcription Initiation Activity Sets Replication Origin Efficiency in Mammalian Cells

(2009) Joana Sequeira-Mendes et al.   PLoS Genetics

Rapid, Transcription-Independent Loss of Nucleosomes over a Large Chromatin Domain at Hsp70 Loci

(2008) Steven J. Petesch et al.   CELL

A chromatin-wide transition to H4K20 monomethylation impairs genome integrity and programmed DNA rearrangements in the mouse

(2008) G. Schotta et al.   GENES & DEVELOPMENT

HBO1 histone acetylase is a coactivator of the replication licensing factor Cdt1

(2008) B. Miotto et al.   GENES & DEVELOPMENT

Global organization of replication time zones of the mouse genome

(2008) S. Farkash-Amar et al.   GENOME RESEARCH

In Xenopus Egg Extracts, DNA Replication Initiates Preferentially at or near Asymmetric AT Sequences

(2008) S. Stanojcic et al.   MOLECULAR AND CELLULAR BIOLOGY

An ARS Element Inhibits DNA Replication through a SIR2-Dependent Mechanism

(2008) Amber Crampton et al.   MOLECULAR CELL

Replication fork movement sets chromatin loop size and origin choice in mammalian cells

(2008) Sylvain Courbet 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

A Dynamic Stochastic Model for DNA Replication Initiation in Early Embryos

(2008) Arach Goldar et al.   PLoS One

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

Excess MCM proteins protect human cells from replicative stress by licensing backup origins of replication

(2008) Arkaitz Ibarra et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Interaction between HMGA1a and the origin recognition complex creates site-specific replication origins

(2008) A. W. Thomae 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

Identification of Novel Human Cdt1-binding Proteins by a Proteomics Approach: Proteolytic Regulation by APC/CCdh1

(2007) Nozomi Sugimoto et al.   MOLECULAR BIOLOGY OF THE CELL