Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types (Q33881351)

29 July 2017

Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types (English)

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29 July 2017

Ichiro Hiratani

2

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Junjie Lu

object named as

Junjie Lu

3

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author name string

Tyrone Ryba

1

1 reference

29 July 2017

Mari Itoh

4

1 reference

29 July 2017

Michael Kulik

5

1 reference

29 July 2017

Jinfeng Zhang

6

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29 July 2017

Thomas C Schulz

7

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29 July 2017

Allan J Robins

8

1 reference

29 July 2017

Stephen Dalton

9

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29 July 2017

David M Gilbert

10

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29 July 2017

language of work or name

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29 April 2010

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29 July 2017

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20

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29 July 2017

6

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29 July 2017

761-770

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describes a project that uses

29 July 2017

limma

1 reference

22 June 2022

https://europepmc.org/article/PMC/2877573

based on heuristic

inferred from PubMed Central ID database lookup

cites work

Genome-wide analysis of the replication program in mammals

1 reference

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Sequencing newly replicated DNA reveals widespread plasticity in human replication timing

5 July 2018

1 reference

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

5 July 2018

1 reference

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Decreased replication origin activity in temporal transition regions

5 July 2018

1 reference

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ENCODE whole-genome data in the UCSC Genome Browser

5 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

G9a selectively represses a class of late-replicating genes at the nuclear periphery.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Comprehensive mapping of long-range interactions reveals folding principles of the human genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Predictable dynamic program of timing of DNA replication in human cells

5 July 2018

1 reference

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Early cell fate decisions of human embryonic stem cells and mouse epiblast stem cells are controlled by the same signalling pathways

5 July 2018

1 reference

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CTCF: master weaver of the genome

5 July 2018

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Replication timing and transcriptional control: beyond cause and effect--part II.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Replication timing as an epigenetic mark

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Klf4 reverts developmentally programmed restriction of ground state pluripotency

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Monomethylation of histone H4-lysine 20 is involved in chromosome structure and stability and is essential for mouse development

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Role of the murine reprogramming factors in the induction of pluripotency

5 July 2018

1 reference

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ReplicationDomain: a visualization tool and comparative database for genome-wide replication timing data

5 July 2018

1 reference

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Global reorganization of replication domains during embryonic stem cell differentiation

5 July 2018

1 reference

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Global organization of replication time zones of the mouse genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Reprogramming of human somatic cells to pluripotency with defined factors

5 July 2018

1 reference

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Self-renewal of human embryonic stem cells requires insulin-like growth factor-1 receptor and ERBB2 receptor signaling

5 July 2018

1 reference

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Derivation of pluripotent epiblast stem cells from mammalian embryos

5 July 2018

1 reference

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New cell lines from mouse epiblast share defining features with human embryonic stem cells

5 July 2018

1 reference

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Identification of higher-order functional domains in the human ENCODE regions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

High-resolution profiling of histone methylations in the human genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Gene expression pattern and progression of embryogenesis in the immediate post-implantation period of mouse development

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

A faster circular binary segmentation algorithm for the analysis of array CGH data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Neural induction promotes large-scale chromatin reorganisation of the Mash1 locus.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Core transcriptional regulatory circuitry in human embryonic stem cells

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

A genomic view of eukaryotic DNA replication.

5 July 2018

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Differential subnuclear localization and replication timing of histone H3 lysine 9 methylation states

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Amplicons on human chromosome 11q are located in the early/late-switch regions of replication timing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Epigenetic aspects of differentiation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Replication timing of the human genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes

5 July 2018

1 reference

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Exploration, normalization, and summaries of high density oligonucleotide array probe level data

5 July 2018

1 reference

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A comparison of normalization methods for high density oligonucleotide array data based on variance and bias

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Replication timing and transcriptional control: beyond cause and effect

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Replication and subnuclear location dynamics of the immunoglobulin heavy-chain locus in B-lineage cells.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

The replication timing program of the Chinese hamster beta-globin locus is established coincident with its repositioning near peripheral heterochromatin in early G1 phase

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Nuclear position leaves its mark on replication timing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

A shift from reversible to irreversible X inactivation is triggered during ES cell differentiation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Reflections on the biology of embryonic stem (ES) cells

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Differentiation of human embryonic stem cells to dopaminergic neurons in serum-free suspension culture

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Recombination drives the evolution of GC-content in the human genome.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

Genome-wide DNA replication profile for Drosophila melanogaster: a link between transcription and replication timing

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2877573

The spatial position and replication timing of chromosomal domains are both established in early G1 phase

29 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20430782

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Regional and temporal changes in the pattern of X-chromosome replication during the early post-implantation development of the female mouse

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20430782

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1101/GR.099655.109

1 reference

29 July 2017

1 reference

29 July 2017

1 reference