Time scales in epigenetic dynamics and phenotypic heterogeneity of embryonic stem cells (Q35069137)

6 August 2017

title

Time scales in epigenetic dynamics and phenotypic heterogeneity of embryonic stem cells (English)

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6 August 2017

main subject

phenotypic heterogeneity

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5

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author name string

Masaki Sasai

1

1 reference

6 August 2017

Yudai Kawabata

2

1 reference

6 August 2017

Koh Makishi

3

1 reference

6 August 2017

Kazuhito Itoh

4

1 reference

6 August 2017

language of work or name

1 reference

12 December 2013

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PLOS Computational Biology

6 August 2017

published in

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6 August 2017

volume

9

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6 August 2017

issue

12

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6 August 2017

page(s)

e1003380

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Creative Commons Attribution 4.0 International

6 August 2017

copyright license

start time

12 December 2013

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

Eddy current and coupled landscapes for nonadiabatic and nonequilibrium complex system dynamics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

The pluripotent genome in three dimensions is shaped around pluripotency factors

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Eukaryotic transcriptional dynamics: from single molecules to cell populations

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Spatial pattern dynamics of 3D stem cell loss of pluripotency via rules-based computational modeling

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

DNA methylation dynamics in health and disease

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

OCT4/SOX2-independent Nanog autorepression modulates heterogeneous Nanog gene expression in mouse ES cells.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

A dynamical-systems view of stem cell biology

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Transcriptional burst frequency and burst size are equally modulated across the human genome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Consequences of mRNA transport on stochastic variability in protein levels.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Predictive computation of genomic logic processing functions in embryonic development

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

A simple histone code opens many paths to epigenetics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Uncovering MicroRNA and Transcription Factor Mediated Regulatory Networks in Glioblastoma

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Dynamics and memory of heterochromatin in living cells.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Analytical distribution and tunability of noise in a model of promoter progress

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Landscape and global stability of nonadiabatic and adiabatic oscillations in a gene network

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Dynamical modeling of three-dimensional genome organization in interphase budding yeast.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Pluripotency Factors in Embryonic Stem Cells Regulate Differentiation into Germ Layers

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Global quantification of mammalian gene expression control

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Roles of DNA Looping in Enhancer-Blocking Activity

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Mapping of long-range associations throughout the fission yeast genome reveals global genome organization linked to transcriptional regulation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Functional roles for noise in genetic circuits

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Nanog variability and pluripotency regulation of embryonic stem cells--insights from a mathematical model analysis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Cell lineage determination in state space: a systems view brings flexibility to dogmatic canonical rules

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Functional heterogeneity of embryonic stem cells revealed through translational amplification of an early endodermal transcript.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

A model for genetic and epigenetic regulatory networks identifies rare pathways for transcription factor induced pluripotency

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

c-Myc regulates transcriptional pause release

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Systems biology of stem cell fate and cellular reprogramming

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Nanog is the gateway to the pluripotent ground state.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Regulated fluctuations in nanog expression mediate cell fate decisions in embryonic stem cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

A parallel circuit of LIF signalling pathways maintains pluripotency of mouse ES cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Dynamic features of gene expression control by small regulatory RNAs.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Reprogramming cell fates: reconciling rarity with robustness

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

A computational model for understanding stem cell, trophectoderm and endoderm lineage determination

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Nonidentifiability of the source of intrinsic noise in gene expression from single-burst data

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Potential landscape and flux framework of nonequilibrium networks: robustness, dissipation, and coherence of biochemical oscillations

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Mediators of reprogramming: transcription factors and transitions through mitosis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Requirement of Nanog dimerization for stem cell self-renewal and pluripotency

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Ultrasensitive gene regulation by positive feedback loops in nucleosome modification

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Stem cells, the molecular circuitry of pluripotency and nuclear reprogramming

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Oct4 dependence of chromatin structure within the extended Nanog locus in ES cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Deconstructing stem cell self-renewal: genetic insights into cell-cycle regulation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Nanog safeguards pluripotency and mediates germline development

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Molecular level stochastic model for competence cycles in Bacillus subtilis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

A heterogeneous expression pattern for Nanog in embryonic stem cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Pluripotency governed by Sox2 via regulation of Oct3/4 expression in mouse embryonic stem cells.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Theoretical analysis of epigenetic cell memory by nucleosome modification.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

How is pluripotency determined and maintained?

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

A protein interaction network for pluripotency of embryonic stem cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Transcriptional dynamics of the embryonic stem cell switch

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Molecular control of pluripotency

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Differentiation of mouse embryonic stem cells after RNA interference-mediated silencing of OCT4 and Nanog

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Absolute rate theories of epigenetic stability

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Interaction between Oct3/4 and Cdx2 determines trophectoderm differentiation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Orphan nuclear receptor GCNF is required for the repression of pluripotency genes during retinoic acid-induced embryonic stem cell differentiation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Core transcriptional regulatory circuitry in human embryonic stem cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Contributions of low molecule number and chromosomal positioning to stochastic gene expression

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Genetic regulation of stem cell origins in the mouse embryo.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Reciprocal transcriptional regulation of Pou5f1 and Sox2 via the Oct4/Sox2 complex in embryonic stem cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Oct-3/4 and Sox2 regulate Oct-3/4 gene in embryonic stem cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Self-consistent proteomic field theory of stochastic gene switches

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Control of stochasticity in eukaryotic gene expression

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Functional expression cloning of Nanog, a pluripotency sustaining factor in embryonic stem cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

The homeoprotein Nanog is required for maintenance of pluripotency in mouse epiblast and ES cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Noise in eukaryotic gene expression

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Stochastic gene expression as a many-body problem

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Differentiation of embryonic stem cells is induced by GATA factors

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Quantitative expression of Oct-3/4 defines differentiation, dedifferentiation or self-renewal of ES cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

Roles of noise in single and coupled multiple genetic oscillators

8 July 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1003380

Adiabatic and Non-Adiabatic Non-Equilibrium Stochastic Dynamics of Single Regulating Genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1003380

Intrinsic transition of embryonic stem-cell differentiation into neural progenitors

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1003380

NANOG maintains self-renewal of primate ES cells in the absence of a feeder layer

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1003380

Control of ground-state pluripotency by allelic regulation of Nanog

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1003380

Exact stochastic simulation of coupled chemical reactions

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1003380

LIF/STAT3 controls ES cell self-renewal and pluripotency by a Myc-dependent mechanism.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1003380

Open-system nonequilibrium steady state: statistical thermodynamics, fluctuations, and chemical oscillations

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1003380

A negative feedback loop of transcription factors that controls stem cell pluripotency and self-renewal

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PCBI.1003380

A perturbation analysis of rate theory of self-regulating genes and signaling networks

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3861442

10.1371/JOURNAL.PCBI.1003380

27 September 2018

Identifiers

DOI

1 reference

journals/ploscb/SasaiKMIT13

6 August 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

6 August 2017

1 reference