Modeling the dynamics of transcriptional gene regulatory networks for animal development. (Q37333145)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19028486%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

review article

1 reference

title

Modeling the dynamics of transcriptional gene regulatory networks for animal development (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19028486%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

language of work or name

English

0 references

publication date

12 November 2008

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19028486%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

published in

Developmental Biology

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19028486%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

volume

325

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19028486%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

issue

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19028486%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

page(s)

317-328

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19028486%20AND%20SRC:MED&resulttype=core&format=json

Global regulatory logic for specification of an embryonic cell lineage

17 January 2020

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6 September 2017

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6 September 2017

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Logic functions of the genomic cis-regulatory code

6 September 2017

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Whole-genome analysis of Drosophila gastrulation

6 September 2017

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Silencing of transgene transcription precedes methylation of promoter DNA and histone H3 lysine 9.

6 September 2017

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Structure and function of the feed-forward loop network motif

6 September 2017

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Oscillations, clocks and segmentation

6 September 2017

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Transcriptional regulatory cascades in development: initial rates, not steady state, determine network kinetics

6 September 2017

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On schemes of combinatorial transcription logic

6 September 2017

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Controlling the double helix

6 September 2017

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Early B-cell factor, E2A, and Pax-5 cooperate to activate the early B cell-specific mb-1 promoter

6 September 2017

1 reference

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Oscillatory expression of the bHLH factor Hes1 regulated by a negative feedback loop

6 September 2017

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Modeling and simulation of genetic regulatory systems: a literature review

6 September 2017

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Role for Hes1-induced phosphorylation in Groucho-mediated transcriptional repression

6 September 2017

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The cap-to-tail guide to mRNA turnover

6 September 2017

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Modeling transcriptional control in gene networks--methods, recent results, and future directions

6 September 2017

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Loading of DNA-binding factors to an erythroid enhancer.

6 September 2017

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Loss of transcriptional activity of a transgene is accompanied by DNA methylation and histone deacetylation and is prevented by insulators

6 September 2017

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Origins of mRNA identity: capping enzymes bind to the phosphorylated C-terminal domain of RNA polymerase II

6 September 2017

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Short-range transcriptional repressors mediate both quenching and direct repression within complex loci in Drosophila

6 September 2017

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The eve stripe 2 enhancer employs multiple modes of transcriptional synergy

6 September 2017

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Virus induction of human IFN beta gene expression requires the assembly of an enhanceosome

6 September 2017

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Overlapping positive and negative regulatory elements determine lens-specific activity of the delta 1-crystallin enhancer

6 September 2017

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Degradation of unstable interleukin-1 alpha mRNA in a rabbit reticulocyte cell-free system. Localization of an instability determinant to a cluster of AUUUA motifs.

6 September 2017

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Interleukin-2 transcription is regulated in vivo at the level of coordinated binding of both constitutive and regulated factors.

6 September 2017

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The nonamer UUAUUUAUU is the key AU-rich sequence motif that mediates mRNA degradation

6 September 2017

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Quantitative model for gene regulation by lambda phage repressor

6 September 2017

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The lac repressor-operator interaction. 3. Kinetic studies

6 September 2017

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Analysis of the tissue-specific enhancer at the 3' end of the chicken adult beta-globin gene

6 September 2017

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Transcriptional repression of eukaryotic promoters

6 September 2017

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Cis-regulatory control of the nodal gene, initiator of the sea urchin oral ectoderm gene network

6 September 2017

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DNA methylation and histone modification regulate silencing of epithelial cell adhesion molecule for tumor invasion and progression

14 September 2017

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Epigenetic mechanism of rRNA gene silencing: temporal order of NoRC-mediated histone modification, chromatin remodeling, and DNA methylation

14 September 2017

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Phosphorylation of serine 239 of Groucho/TLE1 by protein kinase CK2 is important for inhibition of neuronal differentiation

14 September 2017

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Transcriptional gene silencing promotes DNA hypermethylation through a sequential change in chromatin modifications in cancer cells.

14 September 2017

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CtBP-independent repression in the Drosophila embryo

14 September 2017

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Dependence of BSAP repressor and activator functions on BSAP concentration

14 September 2017

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Transcriptional repression in development

28 September 2017

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Cooperativity between the J and S elements of class II major histocompatibility complex genes as enhancers in normal and class II-negative patient and mutant B cell lines

28 September 2017

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Design flexibility in cis-regulatory control of gene expression: synthetic and comparative evidence

28 September 2017

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Cis-regulatory logic in the endo16 gene: switching from a specification to a differentiation mode of control.

26 June 2018

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Analysis of an even-skipped rescue transgene reveals both composite and discrete neuronal and early blastoderm enhancers, and multi-stripe positioning by gap gene repressor gradients

26 June 2018

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Kinetic analysis of segmentation gene interactions in Drosophila embryos.

26 June 2018

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Dynamic changes in the functions of Odd-skipped during early Drosophila embryogenesis

26 June 2018

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Cooperative DNA-binding by Bicoid provides a mechanism for threshold-dependent gene activation in the Drosophila embryo

26 June 2018

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Genomic cis-regulatory logic: experimental and computational analysis of a sea urchin gene

26 June 2018

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hairy mediates dominant repression in the Drosophila embryo

26 June 2018

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Theoretical aspects of DNA-protein interactions: co-operative and non-co-operative binding of large ligands to a one-dimensional homogeneous lattice.

26 June 2018

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Developmental appearance of factors that bind specifically to cis-regulatory sequences of a gene expressed in the sea urchin embryo

26 June 2018

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Interaction of specific nuclear factors with the nuclease-hypersensitive region of the chicken adult beta-globin gene: nature of the binding domain

26 June 2018

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The bicoid protein is a positive regulator of hunchback transcription in the early Drosophila embryo.

26 June 2018

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Gene regulatory factors of the sea urchin embryo. II. Two dissimilar proteins, P3A1 and P3A2, bind to the same target sites that are required for early territorial gene expression

26 June 2018

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Gene regulatory factors of the sea urchin embryo. I. Purification by affinity chromatography and cloning of P3A2, a novel DNA-binding protein.

26 June 2018

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Modulation of sea urchin actin mRNA prevalence during embryogenesis: Nuclear synthesis and decay rate measurements of transcripts from five different genes

26 June 2018

1 reference

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Dynamics of a two-dimensional model of cell tissues with coupled stochastic gene networks.

26 June 2018

1 reference

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Effects of molecular memory and bursting on fluctuations in gene expression.

2 September 2018

1 reference

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Role of poly (A) tail as an identity element for mRNA nuclear export

2 September 2018

1 reference

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A gene regulatory network subcircuit drives a dynamic pattern of gene expression.

2 September 2018

1 reference

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Collaboration between Smads and a Hox protein in target gene repression.

2 September 2018

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Development. Built to run, not fail

2 September 2018

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Studying genetic regulatory networks at the molecular level: delayed reaction stochastic models.

2 September 2018

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Identification and characterization of homeobox transcription factor genes in Strongylocentrotus purpuratus, and their expression in embryonic development

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

Repression of mesodermal fate by foxa, a key endoderm regulator of the sea urchin embryo.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

Intracellular delay limits cyclic changes in gene expression.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

Multilineage transcriptional priming and determination of alternate hematopoietic cell fates.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

Modelling transcriptional feedback loops: the role of Gro/TLE1 in Hes1 oscillations.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

cis-Regulatory control of cyclophilin, a member of the ETS-DRI skeletogenic gene battery in the sea urchin embryo

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

Transcriptional stochasticity in gene expression.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

Monomeric and dimeric bZIP transcription factor GCN4 bind at the same rate to their target DNA site

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

Modification of octamer binding transcriptional factor is related to H2B histone gene repression during dimethyl sulfoxide-dependent differentiation of HL-60 cells

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

The Drosophila morphogenetic protein Bicoid binds DNA cooperatively.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4100934

Short-range repression permits multiple enhancers to function autonomously within a complex promoter

2 September 2018

1 reference

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Rates of RNA chain growth in developing sea urchin embryos

2 September 2018

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Regulation of cytoplasmic mRNA prevalence in sea urchin embryos. Rates of appearance and turnover for specific sequences

7 January 2021

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Properties of developmental gene regulatory networks

7 January 2021

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Protein synthesis, polyribosomes, and peptide elongation in early development of Strongylocentrotus purpuratus

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YDBIO.2008.10.043

The general affinity of lac repressor for E. coli DNA: Implications for gene regulation in procaryotes and eucaryotes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YDBIO.2008.10.043

Polysome structure in sea urchin eggs and embryos: an electron microscopic analysis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YDBIO.2008.10.043

Kinetic studies of sequence-specific binding of GCN4-bZIP peptides to DNA strands immobilized on a 27-MHz quartz-crystal microbalance

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YDBIO.2008.10.043

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YDBIO.2008.10.043

Energy requirement and kinetics of transport of poly(A)-free histone mRNA compared to poly(A)-rich mRNA from isolated L-cell nuclei

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YDBIO.2008.10.043

Two mechanisms in the action of repressor deltaEF1: binding site competition with an activator and active repression

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YDBIO.2008.10.043

10.1016/J.YDBIO.2008.10.043

7 January 2021

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19028486%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19028486%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

PubMed publication ID

19028486

1 reference