Deciphering a transcriptional regulatory code: modeling short-range repression in the Drosophila embryo. (Q42025274)

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16 January 2020

title

Deciphering a transcriptional regulatory code: modeling short-range repression in the Drosophila embryo (English)

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16 January 2020

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1

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16 January 2020

6

David N Arnosti

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16 January 2020

author name string

Ahmet Ay

2

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16 January 2020

Rupinder Sayal

3

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16 January 2020

Jacqueline Dresch

4

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16 January 2020

Evan Dayringer

5

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16 January 2020

publication date

19 January 2010

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Molecular Systems Biology

16 January 2020

published in

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16 January 2020

volume

6

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16 January 2020

page(s)

341

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Anterior-posterior positional information in the absence of a strong Bicoid gradient

16 January 2020

cites work

1 reference

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Establishment of tribolium as a genetic model system and its early contributions to evo-devo

5 June 2018

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Evolution acts on enhancer organization to fine-tune gradient threshold readouts

5 June 2018

1 reference

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Image processing and analysis for quantifying gene expression from early Drosophila embryos

5 June 2018

1 reference

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Sepsid even-skipped enhancers are functionally conserved in Drosophila despite lack of sequence conservation

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Plasticity of the cis-regulatory input function of a gene

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

cis-regulatory logic of short-range transcriptional repression in Drosophila melanogaster

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Transcriptional regulation by the numbers: applications

5 June 2018

1 reference

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Transcriptional regulation by the numbers: models.

5 June 2018

1 reference

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Transcriptional control in the segmentation gene network of Drosophila

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Coordinate enhancers share common organizational features in the Drosophila genome

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Distance preferences in the arrangement of binding motifs and hierarchical levels in organization of transcription regulatory information.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Detailed map of a cis-regulatory input function

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

DNA binding sites: representation and discovery

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Orthodenticle regulation during embryonic head development in Drosophila.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

The gap protein knirps mediates both quenching and direct repression in the Drosophila embryo.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

The eve stripe 2 enhancer employs multiple modes of transcriptional synergy

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Evolutionary dynamics of the enhancer region of even-skipped in Drosophila.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Spacing ensures autonomous expression of different stripe enhancers in the even-skipped promoter.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Multiple modes of dorsal-bHLH transcriptional synergy in the Drosophila embryo.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Quantitative model for gene regulation by lambda phage repressor

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Non-specific DNA binding of genome regulating proteins as a biological control mechanism: I. The lac operon: equilibrium aspects

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Determination of spatial domains of zygotic gene expression in the Drosophila embryo by the affinity of binding sites for the bicoid morphogen.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

The dorsal gradient morphogen regulates stripes of rhomboid expression in the presumptive neuroectoderm of the Drosophila embryo

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Predicting expression patterns from regulatory sequence in Drosophila segmentation.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

A rationale for the enhanceosome and other evolutionarily constrained enhancers.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Efficient parameter estimation for spatio-temporal models of pattern formation: case study of Drosophila melanogaster.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

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

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Computational models for neurogenic gene expression in the Drosophila embryo.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Dynamic control of positional information in the early Drosophila embryo.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

A self-organizing system of repressor gradients establishes segmental complexity in Drosophila.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

DNA looping and physical constraints on transcription regulation.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

A logical analysis of the Drosophila gap-gene system.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Transcriptional repression by the Drosophila giant protein: cis element positioning provides an alternative means of interpreting an effector gradient.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

CNS midline enhancers of the Drosophila slit and Toll genes.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

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

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2824527

Information display by transcriptional enhancers

17 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20087339

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The OR control system of bacteriophage lambda. A physical-chemical model for gene regulation

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20087339

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/MSB.2009.97

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20087339%20AND%20SRC:MED&resulttype=core&format=json

16 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20087339%20AND%20SRC:MED&resulttype=core&format=json

16 January 2020

1 reference