(Q34341620)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

title

Coevolution within a transcriptional network by compensatory trans and cis mutations (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

0 references

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

Kai Tan

8

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

9

Trey Ideker

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

author name string

Dwight Kuo

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

Katherine Licon

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

Sourav Bandyopadhyay

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

Ryan Chuang

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

Colin Luo

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

Justin Catalana

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

publication date

26 October 2010

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

volume

20

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

issue

12

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

page(s)

1672-1678

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

describes a project that uses

14 January 2020

limma

1 reference

22 June 2022

https://europepmc.org/article/PMC/2989993

inferred from PubMed Central ID database lookup

cites work

Evolutionary divergence in the fungal response to fluconazole revealed by soft clustering

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Natural selection on cis and trans regulation in yeasts

6 July 2018

1 reference

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Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding

6 July 2018

1 reference

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Binding site turnover produces pervasive quantitative changes in transcription factor binding between closely related Drosophila species

6 July 2018

1 reference

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Variation in transcription factor binding among humans

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Genetic analysis of variation in transcription factor binding in yeast

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Evolutionary tinkering with conserved components of a transcriptional regulatory network

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Gene duplication and the evolution of ribosomal protein gene regulation in yeast

6 July 2018

1 reference

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Polygenic and directional regulatory evolution across pathways in Saccharomyces

6 July 2018

1 reference

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The Yap family and its role in stress response.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Experimental determination of the evolvability of a transcription factor

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Developmental and species-divergent globin switching are driven by BCL11A

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Roles of trans and cis variation in yeast intraspecies evolution of gene expression

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Gene expression divergence in yeast is coupled to evolution of DNA-encoded nucleosome organization

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Genetic interactions between transcription factors cause natural variation in yeast

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Protein co-evolution, co-adaptation and interactions

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Species-specific transcription in mice carrying human chromosome 21

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Variation in homeodomain DNA binding revealed by high-resolution analysis of sequence preferences

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

The gene regulatory logic of transcription factor evolution

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Transcription factor substitution during the evolution of fungal ribosome regulation

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

The evolution of combinatorial gene regulation in fungi

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

A systems approach to delineate functions of paralogous transcription factors: role of the Yap family in the DNA damage response.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

BEAST: Bayesian evolutionary analysis by sampling trees

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Gene duplication and the adaptive evolution of a classic genetic switch

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Natural history and evolutionary principles of gene duplication in fungi

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Divergence of transcription factor binding sites across related yeast species

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

The evolutionary significance of cis-regulatory mutations

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

An improved map of conserved regulatory sites for Saccharomyces cerevisiae

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Compensatory cis-trans evolution and the dysregulation of gene expression in interspecific hybrids of Drosophila

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Conservation and evolvability in regulatory networks: the evolution of ribosomal regulation in yeast

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

The landscape of genetic complexity across 5,700 gene expression traits in yeast

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Conservation and evolution of cis-regulatory systems in ascomycete fungi

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

DNA-binding domain of GCN4 induces bending of both the ATF/CREB and AP-1 binding sites of DNA.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Transcriptional regulatory code of a eukaryotic genome

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

MUSCLE: multiple sequence alignment with high accuracy and high throughput

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Statistical significance for genomewide studies

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Mfold web server for nucleic acid folding and hybridization prediction

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Finding Functional Features in Saccharomyces Genomes by Phylogenetic Footprinting

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Sequencing and comparison of yeast species to identify genes and regulatory elements

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

AP-1 as a regulator of cell life and death

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Evolutionary trace analysis of TGF-beta and related growth factors: implications for site-directed mutagenesis.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Structural basis for the diversity of DNA recognition by bZIP transcription factors

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

A generic protein purification method for protein complex characterization and proteome exploration

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Identifying DNA and protein patterns with statistically significant alignments of multiple sequences

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

The activation specificities of wild-type and mutant Gcn4p in vivo can be different from the DNA binding specificities of the corresponding bZip peptides in vitro

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Designer deletion strains derived from Saccharomyces cerevisiae S288C: a useful set of strains and plasmids for PCR-mediated gene disruption and other applications

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Yap, a novel family of eight bZIP proteins in Saccharomyces cerevisiae with distinct biological functions

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Local alignment statistics

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Determinants of half-site spacing preferences that distinguish AP-1 and ATF/CREB bZIP domains

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

A yeast hybrid provides insight into the evolution of gene expression regulation.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Regulatory changes underlying expression differences within and between Drosophila species.

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Evolution of alternative transcriptional circuits with identical logic

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Rosetta error model for gene expression analysis.

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Improved detection of DNA motifs using a self-organized clustering of familial binding profiles.

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Thermodynamic signature of GCN4-bZIP binding to DNA indicates the role of water in discriminating between the AP-1 and ATF/CREB sites

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

In vivo site-directed mutagenesis using oligonucleotides

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2989993

Rewiring of the Yeast Transcriptional Network Through the Evolution of Motif Usage

27 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20978140

12 December 2020

inferred from PubMed ID database lookup

An improved protocol for the preparation of yeast cells for transformation by electroporation

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20978140

12 December 2020

inferred from PubMed ID database lookup

A novel feature of DNA recognition: a mutant Gcn4p bZip peptide with dual DNA binding specificities dependent of half-site spacing

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20978140

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1101/GR.111765.110

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20978140%20AND%20SRC:MED&resulttype=core&format=json

14 January 2020

1 reference