Intersecting transcription networks constrain gene regulatory evolution (Q35935784)

11 August 2017

Intersecting transcription networks constrain gene regulatory evolution (English)

1 reference

11 August 2017

Trevor R Sorrells

1

1 reference

11 August 2017

Lauren N Booth

series ordinal

2

1 reference

11 August 2017

Brian B Tuch

series ordinal

3

1 reference

11 August 2017

Alexander D Johnson

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4

1 reference

11 August 2017

language of work or name

English

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publication date

8 July 2015

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11 August 2017

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11 August 2017

523

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11 August 2017

7560

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11 August 2017

361-365

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https://scigraph.springernature.com/pub.10.1038/nature14613

11 August 2017

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cites work

Low affinity binding site clusters confer hox specificity and regulatory robustness.

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Historical contingency and its biophysical basis in glucocorticoid receptor evolution.

2 October 2017

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Evolutionary biochemistry: revealing the historical and physical causes of protein properties.

2 October 2017

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Constraint and contingency in multifunctional gene regulatory circuits

2 October 2017

1 reference

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Spatial promoter recognition signatures may enhance transcription factor specificity in yeast

2 October 2017

1 reference

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Protein modularity, cooperative binding, and hybrid regulatory states underlie transcriptional network diversification

2 October 2017

1 reference

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Fast gapped-read alignment with Bowtie 2

2 October 2017

1 reference

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Evolutionary erosion of yeast sex chromosomes by mating-type switching accidents

2 October 2017

1 reference

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Rapid evolutionary rewiring of a structurally constrained eye enhancer

2 October 2017

1 reference

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PHAST and RPHAST: phylogenetic analysis with space/time models

2 October 2017

1 reference

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Intercalation of a new tier of transcription regulation into an ancient circuit

2 October 2017

1 reference

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MochiView: versatile software for genome browsing and DNA motif analysis

2 October 2017

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Measuring transcription factor-binding site turnover: a maximum likelihood approach using phylogenies

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

The Sequence Alignment/Map format and SAMtools

2 October 2017

1 reference

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Model-based analysis of ChIP-Seq (MACS)

2 October 2017

1 reference

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

2 October 2017

1 reference

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Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli

2 October 2017

1 reference

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Conservation of divergent transcription in fungi.

2 October 2017

1 reference

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The evolution of combinatorial gene regulation in fungi

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Crystal structure of an ancient protein: evolution by conformational epistasis

2 October 2017

1 reference

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Divergence of transcription factor binding sites across related yeast species

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Computational and experimental approaches double the number of known introns in the pathogenic yeast Candida albicans

2 October 2017

1 reference

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Robustness-epistasis link shapes the fitness landscape of a randomly drifting protein.

2 October 2017

1 reference

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HB tag modules for PCR-based gene tagging and tandem affinity purification in Saccharomyces cerevisiae

2 October 2017

1 reference

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The pheromone response pathway of Kluyveromyces lactis.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

What are DNA sequence motifs?

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Protein stability promotes evolvability

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Target hub proteins serve as master regulators of development in yeast

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Genomic dissection of the cell-type-specification circuit in Saccharomyces cerevisiae

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

MUSCLE: multiple sequence alignment with high accuracy and high throughput

2 October 2017

1 reference

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Identification and characterization of a Candida albicans mating pheromone

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

The evolution of transcriptional regulation in eukaryotes

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Genome-wide location and function of DNA binding proteins

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

PYD2 encodes 5,6-dihydropyrimidine amidohydrolase, which participates in a novel fungal catabolic pathway

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Yeast-enhanced green fluorescent protein (yEGFP): a reporter of gene expression in Candida albicans

2 October 2017

1 reference

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PCR-synthesis of marker cassettes with long flanking homology regions for gene disruptions in S. cerevisiae

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

MAP kinase pathways in yeast: for mating and more

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

The yeast STE12 protein binds to the DNA sequence mediating pheromone induction

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

A regulatory hierarchy for cell specialization in yeast

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Low-affinity transcription factor binding sites shape morphogen responses and enhancer evolution

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Genetic interactions between transcription factors cause natural variation in yeast

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Natural history and evolutionary principles of gene duplication in fungi

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Control of cell type in yeast by the mating type locus. The alpha 1-alpha 2 hypothesis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

On the relation between promoter divergence and gene expression evolution

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Evolution of alternative transcriptional circuits with identical logic

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Evolution of a combinatorial transcriptional circuit: a case study in yeasts

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Selecting models of nucleotide substitution: an application to human immunodeficiency virus 1 (HIV-1).

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4531262

Importance of historical contingency in the stereochemistry of hydratase-dehydratase enzymes

24 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26153861

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Efficient gene targeting in Kluyveromyces lactis

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26153861

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NATURE14613

1 reference

Dimensions Publication ID

11 August 2017

0 references

1 reference

11 August 2017

1 reference