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Literature DB >> 20205353

Genome-wide analysis of the replication program in mammals.

Abstract

Microarray technology has facilitated the research of eukaryotic DNA replication on a genome-wide scale. Recent studies have shed light on the association between time of replication and chromosome structure, on the organization principles of the replication program, and on the correlation between replication timing and transcription. In this review, we summarize various genomic measurement approaches and the biological insights achieved through applying them in the study of the mammalian replication program.

Entities: Species

Mesh：

Year: 2010 PMID： 20205353 DOI： 10.1007/s10577-009-9091-5

Source DB: PubMed Journal: Chromosome Res ISSN： 0967-3849 Impact factor: 5.239

53 in total

1. Changes in the rate of DNA replication fork movement during S phase in mammalian cells.

Authors: D Housman; J A Huberman
Journal: J Mol Biol Date: 1975-05-15 Impact factor: 5.469

2. Heritable gene silencing in lymphocytes delays chromatid resolution without affecting the timing of DNA replication.

Authors: Véronique Azuara; Karen E Brown; Ruth R E Williams; Natasha Webb; Niall Dillon; Richard Festenstein; Veronica Buckle; Matthias Merkenschlager; Amanda G Fisher
Journal: Nat Cell Biol Date: 2003-07 Impact factor: 28.824

3. Chromatin state marks cell-type- and gender-specific replication of the Drosophila genome.

Authors: Michaela Schwaiger; Michael B Stadler; Oliver Bell; Hubertus Kohler; Edward J Oakeley; Dirk Schübeler
Journal: Genes Dev Date: 2009-03-01 Impact factor: 11.361

4. DNA replication timing of the human beta-globin domain is controlled by histone modification at the origin.

Authors: Alon Goren; Amalia Tabib; Merav Hecht; Howard Cedar
Journal: Genes Dev Date: 2008-04-28 Impact factor: 11.361

5. A replication fork barrier at the 3' end of yeast ribosomal RNA genes.

Authors: B J Brewer; W L Fangman
Journal: Cell Date: 1988-11-18 Impact factor: 41.582

6. Eucaryotic DNA: organization of the genome for replication.

Authors: R Hand
Journal: Cell Date: 1978-10 Impact factor: 41.582

7. Human mutation rate associated with DNA replication timing.

Authors: John A Stamatoyannopoulos; Ivan Adzhubei; Robert E Thurman; Gregory V Kryukov; Sergei M Mirkin; Shamil R Sunyaev
Journal: Nat Genet Date: 2009-03-15 Impact factor: 38.330

8. Synchrony in human, mouse and bacterial cell cultures--a comparison.

Authors: Charles E Helmstetter; Maureen Thornton; Ana Romero; K Leigh Eward
Journal: Cell Cycle Date: 2003 Jan-Feb Impact factor: 4.534

9. Pan-S replication patterns and chromosomal domains defined by genome-tiling arrays of ENCODE genomic areas.

Authors: Neerja Karnani; Christopher Taylor; Ankit Malhotra; Anindya Dutta
Journal: Genome Res Date: 2007-06 Impact factor: 9.043

10. Delineation of DNA replication time zones by fluorescence in situ hybridization.

Authors: S Selig; K Okumura; D C Ward; H Cedar
Journal: EMBO J Date: 1992-03 Impact factor: 11.598

33 in total

1. Genome-scale analysis of replication timing: from bench to bioinformatics.

Authors: Tyrone Ryba; Dana Battaglia; Benjamin D Pope; Ichiro Hiratani; David M Gilbert
Journal: Nat Protoc Date: 2011-06-02 Impact factor: 13.491

2. Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types.

Authors: Tyrone Ryba; Ichiro Hiratani; Junjie Lu; Mari Itoh; Michael Kulik; Jinfeng Zhang; Thomas C Schulz; Allan J Robins; Stephen Dalton; David M Gilbert
Journal: Genome Res Date: 2010-04-29 Impact factor: 9.043

3. Genome-Wide Analysis of the Arabidopsis Replication Timing Program.

Authors: Lorenzo Concia; Ashley M Brooks; Emily Wheeler; Gregory J Zynda; Emily E Wear; Chantal LeBlanc; Jawon Song; Tae-Jin Lee; Pete E Pascuzzi; Robert A Martienssen; Matthew W Vaughn; William F Thompson; Linda Hanley-Bowdoin
Journal: Plant Physiol Date: 2018-01-04 Impact factor: 8.340

Genome-wide analysis of the replication program in mammals.

1. Changes in the rate of DNA replication fork movement during S phase in mammalian cells.

2. Heritable gene silencing in lymphocytes delays chromatid resolution without affecting the timing of DNA replication.

3. Chromatin state marks cell-type- and gender-specific replication of the Drosophila genome.

4. DNA replication timing of the human beta-globin domain is controlled by histone modification at the origin.

5. A replication fork barrier at the 3' end of yeast ribosomal RNA genes.

6. Eucaryotic DNA: organization of the genome for replication.

7. Human mutation rate associated with DNA replication timing.

8. Synchrony in human, mouse and bacterial cell cultures--a comparison.

9. Pan-S replication patterns and chromosomal domains defined by genome-tiling arrays of ENCODE genomic areas.

10. Delineation of DNA replication time zones by fluorescence in situ hybridization.

1. Genome-scale analysis of replication timing: from bench to bioinformatics.

2. Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types.

3. Genome-Wide Analysis of the Arabidopsis Replication Timing Program.

Review 4. Genomic approaches to the initiation of DNA replication and chromatin structure reveal a complex relationship.

5. CNV instability associated with DNA replication dynamics: evidence for replicative mechanisms in CNV mutagenesis.

Review 6. 3D genomics imposes evolution of the domain model of eukaryotic genome organization.

Review 7. Maintenance of Epigenetic Information.

Review 8. Evaluating genome-scale approaches to eukaryotic DNA replication.

9. G2 phase chromatin lacks determinants of replication timing.

10. Comparative analysis of DNA replication timing reveals conserved large-scale chromosomal architecture.