(Q34142999)

31 July 2017

title

Contributions of transcription and mRNA decay to gene expression dynamics of fission yeast in response to oxidative stress (English)

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31 July 2017

3

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31 July 2017

4

Jürg Bähler

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author name string

Samuel Marguerat

series ordinal

1

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31 July 2017

Katherine Lawler

series ordinal

2

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31 July 2017

Jürg Bähler

series ordinal

4

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31 July 2017

publication date

9 July 2014

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31 July 2017

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31 July 2017

volume

11

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31 July 2017

issue

6

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31 July 2017

page(s)

702-714

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Global analysis of mRNA isoform half-lives reveals stabilizing and destabilizing elements in yeast

31 July 2017

cites work

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5 July 2018

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A stress-activated, p38 mitogen-activated protein kinase-ATF/CREB pathway regulates posttranscriptional, sequence-dependent decay of target RNAs

5 July 2018

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Gene expression is circular: factors for mRNA degradation also foster mRNA synthesis

5 July 2018

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Nonsense-mediated mRNA decay controls the changes in yeast ribosomal protein pre-mRNAs levels upon osmotic stress

5 July 2018

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Functional characterization of Upf1 targets in Schizosaccharomyces pombe

5 July 2018

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Widespread promoter-mediated coordination of transcription and mRNA degradation

5 July 2018

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Ultrashort and progressive 4sU-tagging reveals key characteristics of RNA processing at nucleotide resolution

5 July 2018

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Regulation of transcriptome, translation, and proteome in response to environmental stress in fission yeast.

5 July 2018

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Systematic discovery of structural elements governing stability of mammalian messenger RNAs

5 July 2018

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Comparative dynamic transcriptome analysis (cDTA) reveals mutual feedback between mRNA synthesis and degradation

5 July 2018

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RNAi keeps Atf1-bound stress response genes in check at nuclear pores

5 July 2018

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5 July 2018

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Genome-Wide Analysis of Nascent Transcription in Saccharomyces cerevisiae

5 July 2018

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Genome-wide determination of RNA stability reveals hundreds of short-lived noncoding transcripts in mammals.

5 July 2018

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Single-molecule mRNA decay measurements reveal promoter- regulated mRNA stability in yeast

5 July 2018

1 reference

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Genome-wide studies of mRNA synthesis and degradation in eukaryotes

5 July 2018

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Controlling gene expression in response to stress.

5 July 2018

1 reference

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Nuclear roles and regulation of chromatin structure by the stress-dependent MAP kinase Sty1 of Schizosaccharomyces pombe

5 July 2018

1 reference

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Transcriptome kinetics is governed by a genome-wide coupling of mRNA production and degradation: a role for RNA Pol II

5 July 2018

1 reference

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Coupled pre-mRNA and mRNA dynamics unveil operational strategies underlying transcriptional responses to stimuli.

5 July 2018

1 reference

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Diverse environmental stresses elicit distinct responses at the level of pre-mRNA processing in yeast

5 July 2018

1 reference

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Dynamic profiling of mRNA turnover reveals gene-specific and system-wide regulation of mRNA decay

5 July 2018

1 reference

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Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells

5 July 2018

1 reference

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Heat shock response in yeast involves changes in both transcription rates and mRNA stabilities

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

RNA polymerase II subunits link transcription and mRNA decay to translation.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Identification of RNA recognition elements in the Saccharomyces cerevisiae transcriptome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Genome-wide analysis of mRNA decay patterns during early Drosophila development

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Genomic binding profiling of the fission yeast stress-activated MAPK Sty1 and the bZIP transcriptional activator Atf1 in response to H2O2.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

RNA polymerase mapping during stress responses reveals widespread nonproductive transcription in yeast

5 July 2018

1 reference

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Global coordination of transcriptional control and mRNA decay during cellular differentiation

5 July 2018

1 reference

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Major role for mRNA stability in shaping the kinetics of gene induction

5 July 2018

1 reference

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Minireview: global regulation and dynamics of ribonucleic Acid

5 July 2018

1 reference

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Dissection of a complex transcriptional response using genome-wide transcriptional modelling

5 July 2018

1 reference

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Growth control and ribosome biogenesis.

5 July 2018

1 reference

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Regulon-specific control of transcription elongation across the yeast genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Specific and global regulation of mRNA stability during osmotic stress in Saccharomyces cerevisiae.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

mRNA stability changes precede changes in steady-state mRNA amounts during hyperosmotic stress

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Timing of gene expression responses to environmental changes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Activity motifs reveal principles of timing in transcriptional control of the yeast metabolic network

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Transcription in the nucleus and mRNA decay in the cytoplasm are coupled processes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Rapidly regulated genes are intron poor.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

RNA polymerase II stalling: loading at the start prepares genes for a sprint

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Multiple pathways differentially regulate global oxidative stress responses in fission yeast

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

A universal framework for regulatory element discovery across all genomes and data types

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Rapid, transcript-specific changes in splicing in response to environmental stress

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

A network of multiple regulatory layers shapes gene expression in fission yeast.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Upf1, an RNA helicase required for nonsense-mediated mRNA decay, modulates the transcriptional response to oxidative stress in fission yeast

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

The more the merrier: comparative analysis of microarray studies on cell cycle-regulated genes in fission yeast

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Cip1 and Cip2 are novel RNA-recognition-motif proteins that counteract Csx1 function during oxidative stress.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Post-transcriptional control of gene expression: a genome-wide perspective.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Genomic run-on evaluates transcription rates for all yeast genes and identifies gene regulatory mechanisms

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

RNAPol-ChIP: a novel application of chromatin immunoprecipitation to the analysis of real-time gene transcription.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

RNA-binding protein Csx1 mediates global control of gene expression in response to oxidative stress.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Decay rates of human mRNAs: correlation with functional characteristics and sequence attributes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Whole-genome microarrays of fission yeast: characteristics, accuracy, reproducibility, and processing of array data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Global transcriptional responses of fission yeast to environmental stress

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Global analysis of stress-regulated mRNA turnover by using cDNA arrays

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Precision and functional specificity in mRNA decay

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4156502

Allele-specific Holliday junction formation: a new mechanism of allelic discrimination for SNP scoring

5 July 2018

1 reference

Genome-wide analysis of mRNA decay rates and their determinants in Arabidopsis thaliana

21 January 2018

1 reference

Transient transcriptional responses to stress are generated by opposing effects of mRNA production and degradation

21 January 2018

1 reference

Comparative analysis of plastid transcription profiles of entire plastid chromosomes from tobacco attributed to wild-type and PEP-deficient transcription machineries.

21 January 2018

1 reference

Comprehensive transcriptional analysis of the oxidative response in yeast

21 January 2018

1 reference

Promoter elements regulate cytoplasmic mRNA decay

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25007214

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.4161/RNA.29196

1 reference

31 July 2017

1 reference

31 July 2017

1 reference