(Q38255027)

1 September 2017

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title

The proteome under translational control (English)

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1 September 2017

3

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1 September 2017

Daria Gawron

1

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author name string

Kris Gevaert

series ordinal

2

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1 September 2017

publication date

2 November 2014

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1 September 2017

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1 September 2017

volume

14

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1 September 2017

issue

23-24

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1 September 2017

page(s)

2647-2662

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Proteomic changes resulting from gene copy number variations in cancer cells

1 September 2017

cites work

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Quantitative and qualitative proteome characteristics extracted from in-depth integrated genomics and proteomics analysis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

The one hour yeast proteome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Minimal, encapsulated proteomic-sample processing applied to copy-number estimation in eukaryotic cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Mass-spectrometry-based draft of the human proteome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

A draft map of the human proteome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

The quantitative proteome of a human cell line.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Deep proteome and transcriptome mapping of a human cancer cell line

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Comparative proteomic analysis of eleven common cell lines reveals ubiquitous but varying expression of most proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Global quantification of mammalian gene expression control

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Corrigendum: Global quantification of mammalian gene expression control

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Mass spectrometry-based proteomics using Q Exactive, a high-performance benchtop quadrupole Orbitrap mass spectrometer.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Proteoform: a single term describing protein complexity

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

A proteogenomics approach integrating proteomics and ribosome profiling increases the efficiency of protein identification and enables the discovery of alternative translation start sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Deep proteome coverage based on ribosome profiling aids mass spectrometry-based protein and peptide discovery and provides evidence of alternative translation products and near-cognate translation initiation events

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

N-terminal proteomics and ribosome profiling provide a comprehensive view of the alternative translation initiation landscape in mice and men

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Bioinformatics analysis of a Saccharomyces cerevisiae N-terminal proteome provides evidence of alternative translation initiation and post-translational N-terminal acetylation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

A Saccharomyces cerevisiae model reveals in vivo functional impairment of the Ogden syndrome N-terminal acetyltransferase NAA10 Ser37Pro mutant

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Identification and functional characterization of N-terminally acetylated proteins in Drosophila melanogaster

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Ribosome profiling reveals pervasive and regulated stop codon readthrough in Drosophila melanogaster

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Observation of dually decoded regions of the human genome using ribosome profiling data

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

The potential role of ribosomal frameshifting in generating aberrant proteins implicated in neurodegenerative diseases

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Discovery and mass spectrometric analysis of novel splice-junction peptides using RNA-Seq

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Comparative analysis of different label-free mass spectrometry based protein abundance estimates and their correlation with RNA-Seq gene expression data

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Quantification of mRNA and protein and integration with protein turnover in a bacterium

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Delayed correlation of mRNA and protein expression in rapamycin-treated cells and a role for Ggc1 in cellular sensitivity to rapamycin

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

A dynamic model of proteome changes reveals new roles for transcript alteration in yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Systems-level dynamic analyses of fate change in murine embryonic stem cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Comparative ribosome profiling reveals extensive translational complexity in different Trypanosoma brucei life cycle stages.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Protein synthesis rate is the predominant regulator of protein expression during differentiation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Initiation of translation in prokaryotes and eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Molecular mechanisms of translation initiation in eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Pushing the limits of the scanning mechanism for initiation of translation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Molecular mechanism of scanning and start codon selection in eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Regulation of translation initiation in eukaryotes: mechanisms and biological targets

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Generation of protein isoform diversity by alternative initiation of translation at non-AUG codons.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Targeted mass spectrometric analysis of N-terminally truncated isoforms generated via alternative translation initiation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Localization of human RNase Z isoforms: dual nuclear/mitochondrial targeting of the ELAC2 gene product by alternative translation initiation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

An upstream open reading frame and the context of the two AUG codons affect the abundance of mitochondrial and nuclear RNase H1

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Alternative translation initiation generates a novel isoform of insulin-degrading enzyme targeted to mitochondria

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Targeting of a human iron-sulfur cluster assembly enzyme, nifs, to different subcellular compartments is regulated through alternative AUG utilization

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Alternative translation initiation augments the human mitochondrial proteome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Alternative translation initiation in rat brain yields K2P2.1 potassium channels permeable to sodium

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Up-regulation of translation eukaryotic initiation factor 4E in nucleophosmin 1 haploinsufficient cells results in changes in CCAAT enhancer-binding protein α activity: implications in myelodysplastic syndrome and acute myeloid leukemia.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

VEGF is a modifier of amyotrophic lateral sclerosis in mice and humans and protects motoneurons against ischemic death

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Human c-Myc isoforms differentially regulate cell growth and apoptosis in Drosophila melanogaster

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Differential use of an in-frame translation initiation codon regulates human mu opioid receptor (OPRM1).

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Alternative translation start sites are conserved in eukaryotic genomes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Identification of evolutionarily conserved non-AUG-initiated N-terminal extensions in human coding sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

NatF contributes to an evolutionary shift in protein N-terminal acetylation and is important for normal chromosome segregation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Selecting protein N-terminal peptides by combined fractional diagonal chromatography

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Proteomics analyses reveal the evolutionary conservation and divergence of N-terminal acetyltransferases from yeast and humans

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Discovery and revision of Arabidopsis genes by proteogenomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Shotgun proteomics aids discovery of novel protein-coding genes, alternative splicing, and "resurrected" pseudogenes in the mouse genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Peptidomic discovery of short open reading frame-encoded peptides in human cells.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Diversity of translation start sites may define increased complexity of the human short ORFeome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Direct detection of alternative open reading frames translation products in human significantly expands the proteome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Decoding human cytomegalovirus

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Hundreds of putatively functional small open reading frames in Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

A large number of novel coding small open reading frames in the intergenic regions of the Arabidopsis thaliana genome are transcribed and/or under purifying selection

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

The abundance of short proteins in the mammalian proteome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Genome-wide search for novel human uORFs and N-terminal protein extensions using ribosomal footprinting

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Ribosome profiling provides evidence that large noncoding RNAs do not encode proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Emerging evidence for functional peptides encoded by short open reading frames

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Combining in silico prediction and ribosome profiling in a genome-wide search for novel putatively coding sORFs

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Evidence for conservation and selection of upstream open reading frames suggests probable encoding of bioactive peptides

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Control of eukaryotic protein synthesis by upstream open reading frames in the 5'-untranslated region of an mRNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

The POLARIS gene of Arabidopsis encodes a predicted peptide required for correct root growth and leaf vascular patterning

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Small peptides switch the transcriptional activity of Shavenbaby during Drosophila embryogenesis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Expanding the dipeptidyl peptidase 4-regulated peptidome via an optimized peptidomics platform

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Analysis of small human proteins reveals the translation of upstream open reading frames of mRNAs

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

MicroRNAs: target recognition and regulatory functions

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

miRBase: annotating high confidence microRNAs using deep sequencing data

21 January 2018

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https://api.crossref.org/works/10.1002%2FPMIC.201400165

Gene silencing by microRNAs: contributions of translational repression and mRNA decay

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Widespread changes in protein synthesis induced by microRNAs

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

The impact of microRNAs on protein output

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Mammalian microRNAs predominantly act to decrease target mRNA levels

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Concordant regulation of translation and mRNA abundance for hundreds of targets of a human microRNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Coping with stress: eIF2 kinases and translational control

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Targeting eukaryotic translation initiation factor 4E (eIF4E) in cancer

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Overexpression of eukaryotic initiation factor 5A2 enhances cell motility and promotes tumor metastasis in hepatocellular carcinoma.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Expression and amplification of eIF-5A2 in human epithelial ovarian tumors and overexpression of EIF-5A2 is a new independent predictor of outcome in patients with ovarian carcinoma.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

eIF4E activation is commonly elevated in advanced human prostate cancers and significantly related to reduced patient survival.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Combined analysis of eIF4E and 4E-binding protein expression predicts breast cancer survival and estimates eIF4E activity

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Translational regulation of yeast GCN4. A window on factors that control initiator-trna binding to the ribosome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Reinitiation involving upstream ORFs regulates ATF4 mRNA translation in mammalian cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

mTOR and S6K1 mediate assembly of the translation preinitiation complex through dynamic protein interchange and ordered phosphorylation events

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Functional specificity among ribosomal proteins regulates gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Specialized ribosomes: a new frontier in gene regulation and organismal biology

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Ribosome heterogeneity: another level of complexity in bacterial translation regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Expression changes of ribosomal proteins in phosphate- and iron-deficient Arabidopsis roots predict stress-specific alterations in ribosome composition

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

RPL39L is an example of a recently evolved ribosomal protein paralog that shows highly specific tissue expression patterns and is upregulated in ESCs and HCC tumors.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

In-vivo quantitative proteomics reveals a key contribution of post-transcriptional mechanisms to the circadian regulation of liver metabolism.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

The circadian clock coordinates ribosome biogenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

A quantitative spatial proteomics analysis of proteome turnover in human cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Novel proteomic approach (PUNCH-P) reveals cell cycle-specific fluctuations in mRNA translation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Translation matters: protein synthesis defects in inherited disease

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Adaptive translation as a mechanism of stress response and adaptation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Distinct functional classes of ram mutations in 16S rRNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Differentiating between near- and non-cognate codons in Saccharomyces cerevisiae

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPMIC.201400165

21 January 2018

Identifiers

DOI

10.1002/PMIC.201400165

1 reference

1 September 2017

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