(Q38186979)

30 August 2017

title

Emerging evidence for functional peptides encoded by short open reading frames (English)

1 reference

30 August 2017

publication date

11 February 2014

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30 August 2017

published in

Nature Reviews Genetics

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24514441%20AND%20SRC:MED&resulttype=core&format=json

4 June 2020

volume

15

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24514441%20AND%20SRC:MED&resulttype=core&format=json

4 June 2020

issue

3

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24514441%20AND%20SRC:MED&resulttype=core&format=json

4 June 2020

page(s)

193-204

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24514441%20AND%20SRC:MED&resulttype=core&format=json

Identification of prokaryotic small proteins using a comparative genomic approach

4 June 2020

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31 March 2020

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31 March 2020

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Comparative genomic analysis of novel conserved peptide upstream open reading frames in Drosophila melanogaster and other dipteran species

31 March 2020

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31 March 2020

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An overview of the current status of eukaryote gene prediction strategies

31 March 2020

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Recent advances in gene structure prediction

31 March 2020

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Vertebrate gene predictions and the problem of large genes

31 March 2020

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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

31 March 2020

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Small open reading frames: current prediction techniques and future prospect.

31 March 2020

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Small open reading frames: beautiful needles in the haystack.

31 March 2020

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Computational methods for the identification of genes in vertebrate genomic sequences.

31 March 2020

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The abundance of short proteins in the mammalian proteome

31 March 2020

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Lilliputians get into the limelight: novel class of small peptide genes in morphogenesis.

31 March 2020

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Functional genomics of genes with small open reading frames (sORFs) in S. cerevisiae

31 March 2020

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SwePep, a database designed for endogenous peptides and mass spectrometry

31 March 2020

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

31 March 2020

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

31 March 2020

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

31 March 2020

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

31 March 2020

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BAIUCAS: a novel BLAST-based algorithm for the identification of upstream open reading frames with conserved amino acid sequences and its application to the Arabidopsis thaliana genome.

31 March 2020

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Discovery and revision of Arabidopsis genes by proteogenomics

31 March 2020

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

31 March 2020

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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

31 March 2020

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sORF finder: a program package to identify small open reading frames with high coding potential

31 March 2020

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HAltORF: a database of predicted out-of-frame alternative open reading frames in human

31 March 2020

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uPEPperoni: an online tool for upstream open reading frame location and analysis of transcript conservation

31 March 2020

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The Ka/Ks ratio: diagnosing the form of sequence evolution

31 March 2020

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31 March 2020

12 December 2020

Identification and characterization of upstream open reading frames (uORF) in the 5' untranslated regions (UTR) of genes in Saccharomyces cerevisiae

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Hundreds of putatively functional small open reading frames in Drosophila

31 March 2020

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Distinguishing protein-coding and noncoding genes in the human genome

31 March 2020

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An analysis of 5'-noncoding sequences from 699 vertebrate messenger RNAs

31 March 2020

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Comparative DNA analysis across diverse genomes.

31 March 2020

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The Pfam protein families database

31 March 2020

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Identification of novel conserved peptide uORF homology groups in Arabidopsis and rice reveals ancient eukaryotic origin of select groups and preferential association with transcription factor-encoding genes

31 March 2020

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Detailed analysis of putative genes encoding small proteins in legume genomes

31 March 2020

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CSTminer: a web tool for the identification of coding and noncoding conserved sequence tags through cross-species genome comparison

31 March 2020

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CRITICA: coding region identification tool invoking comparative analysis

31 March 2020

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CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine.

31 March 2020

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RNA-Seq: a revolutionary tool for transcriptomics

31 March 2020

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Nature, nurture, or chance: stochastic gene expression and its consequences

31 March 2020

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

31 March 2020

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

31 March 2020

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Mass spectrometry at the interface of proteomics and genomics

31 March 2020

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Large-scale transcriptional activity in chromosomes 21 and 22

31 March 2020

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Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

31 March 2020

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Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

31 March 2020

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The reality of pervasive transcription

31 March 2020

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Most "dark matter" transcripts are associated with known genes

31 March 2020

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Transcriptional noise and the fidelity of initiation by RNA polymerase II.

31 March 2020

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

31 March 2020

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Coding vs non-coding: Translatability of short ORFs found in putative non-coding transcripts.

31 March 2020

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The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression

31 March 2020

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uAUG and uORFs in human and rodent 5'untranslated mRNAs

31 March 2020

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

31 March 2020

1 reference

Dual modes of natural selection on upstream open reading frames.

31 March 2020

1 reference

Identification of putative regulatory upstream ORFs in the yeast genome using heuristics and evolutionary conservation.

31 March 2020

1 reference

Conserved upstream open reading frames in higher plants

31 March 2020

1 reference

Known and novel post-transcriptional regulatory sequences are conserved across plant families

31 March 2020

1 reference

Upstream open reading frames: molecular switches in (patho)physiology

31 March 2020

1 reference

Analysis of oligonucleotide AUG start codon context in eukariotic mRNAs.

31 March 2020

1 reference

Statistical analysis of the 5' untranslated region of human mRNA using "Oligo-Capped" cDNA libraries

31 March 2020

1 reference

Presence of ATG triplets in 5' untranslated regions of eukaryotic cDNAs correlates with a 'weak' context of the start codon

31 March 2020

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Small open reading frames in 5' untranslated regions of mRnas

31 March 2020

1 reference

Exploring the selective constraint on the sizes of insertions and deletions in 5' untranslated regions in mammals

31 March 2020

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Bioinformatics prediction of overlapping frameshifted translation products in mammalian transcripts

31 March 2020

1 reference

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

31 March 2020

1 reference

A first look at ARFome: dual-coding genes in mammalian genomes

31 March 2020

1 reference

Length of the ORF, position of the first AUG and the Kozak motif are important factors in potential dual-coding transcripts.

31 March 2020

1 reference

Expression of distinct RNAs from 3' untranslated regions

31 March 2020

1 reference

Ribosome profiling reveals resemblance between long non-coding RNAs and 5' leaders of coding RNAs

31 March 2020

1 reference

Long noncoding RNAs are rarely translated in two human cell lines

31 March 2020

1 reference

Small open reading frames associated with morphogenesis are hidden in plant genomes

31 March 2020

1 reference

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

31 March 2020

1 reference

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

31 March 2020

1 reference

Utilization of an alternative open reading frame of a normal gene in generating a novel human cancer antigen

31 March 2020

1 reference

A small, novel protein highly conserved in plants and animals promotes the polarized growth and division of maize leaf epidermal cells

31 March 2020

1 reference

Soybean ENOD40 encodes two peptides that bind to sucrose synthase

31 March 2020

1 reference

Overexpression of a novel small peptide ROTUNDIFOLIA4 decreases cell proliferation and alters leaf shape in Arabidopsis thaliana.

31 March 2020

1 reference

HSPC300 and its role in neuronal connectivity.

31 March 2020

1 reference

Secreted peptide Dilp8 coordinates Drosophila tissue growth with developmental timing.

31 March 2020

1 reference

Imaginal discs secrete insulin-like peptide 8 to mediate plasticity of growth and maturation.

31 March 2020

1 reference

Conserved regulation of cardiac calcium uptake by peptides encoded in small open reading frames

31 March 2020

1 reference

Peptides encoded by short ORFs control development and define a new eukaryotic gene family

31 March 2020

1 reference

Small peptide regulators of actin-based cell morphogenesis encoded by a polycistronic mRNA.

31 March 2020

1 reference

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

31 March 2020

1 reference

A segmentation gene in tribolium produces a polycistronic mRNA that codes for multiple conserved peptides

31 March 2020

1 reference

Ovol2, a mammalian homolog of Drosophila ovo: gene structure, chromosomal mapping, and aberrant expression in blind-sterile mice

31 March 2020

1 reference

The leader peptide of yeast gene CPA1 is essential for the translational repression of its expression

31 March 2020

1 reference

Ribosome occupancy of the yeast CPA1 upstream open reading frame termination codon modulates nonsense-mediated mRNA decay

31 March 2020

1 reference

Sucrose control of translation mediated by an upstream open reading frame-encoded peptide

31 March 2020

1 reference

A dual upstream open reading frame-based autoregulatory circuit controlling polyamine-responsive translation

31 March 2020

1 reference

Translational regulation of Arabidopsis XIPOTL1 is modulated by phosphocholine levels via the phylogenetically conserved upstream open reading frame 30.

31 March 2020

1 reference

5'UTR sequences of the glucocorticoid receptor 1A transcript encode a peptide associated with translational regulation of the glucocorticoid receptor.

31 March 2020

1 reference

Regulation of endothelial argininosuccinate synthase expression and NO production by an upstream open reading frame

31 March 2020

1 reference

Expression of a novel mRNA transcript for human microsomal epoxide hydrolase (EPHX1) is regulated by short open reading frames within its 5'-untranslated region

31 March 2020

1 reference

Translational repression of the McKusick-Kaufman syndrome transcript by unique upstream open reading frames encoding mitochondrial proteins with alternative polyadenylation sites

31 March 2020

1 reference

An overlapping reading frame in the PRNP gene encodes a novel polypeptide distinct from the prion protein

31 March 2020

1 reference

An out-of-frame overlapping reading frame in the ataxin-1 coding sequence encodes a novel ataxin-1 interacting protein

31 March 2020

1 reference

TALENs: a widely applicable technology for targeted genome editing

31 March 2020

1 reference

Cas9 as a versatile tool for engineering biology

31 March 2020

1 reference

Regulation of protein function by 'microProteins'.

31 March 2020

1 reference

Upstream open reading frames cause widespread reduction of protein expression and are polymorphic among humans

31 March 2020

1 reference

Loss-of-function mutations of an inhibitory upstream ORF in the human hairless transcript cause Marie Unna hereditary hypotrichosis

31 March 2020

1 reference

Investigation of cytotoxicity of negative control peptides versus bioactive peptides on skin cancer and normal cells: a comparative study.

31 March 2020

1 reference

Point mutations define a sequence flanking the AUG initiator codon that modulates translation by eukaryotic ribosomes

31 March 2020

1 reference

Effects of intercistronic length on the efficiency of reinitiation by eucaryotic ribosomes

31 March 2020

1 reference

Upstream open reading frames as regulators of mRNA translation

31 March 2020

1 reference

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

31 March 2020

1 reference

Translational control by an upstream open reading frame in the HER-2/neu transcript

31 March 2020

1 reference

Post-transcriptional regulation of the gli1 oncogene by the expression of alternative 5' untranslated regions

31 March 2020

1 reference

5'-untranslated regions with multiple upstream AUG codons can support low-level translation via leaky scanning and reinitiation

31 March 2020

1 reference

An analysis of vertebrate mRNA sequences: intimations of translational control

31 March 2020

1 reference

Drosophila Pgc protein inhibits P-TEFb recruitment to chromatin in primordial germ cells

31 March 2020

1 reference

Thrombopoietin production is inhibited by a translational mechanism.

31 March 2020

1 reference

12 December 2020

Polyamine regulation of ribosome pausing at the upstream open reading frame of S-adenosylmethionine decarboxylase

1 reference

12 December 2020

Conserved Peptide Upstream Open Reading Frames are Associated with Regulatory Genes in Angiosperms

1 reference

12 December 2020

Translational control of C/EBPalpha and C/EBPbeta isoform expression.

1 reference

12 December 2020

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

1 reference

12 December 2020

A non-AUG-defined alternative open reading frame of the intestinal carboxyl esterase mRNA generates an epitope recognized by renal cell carcinoma-reactive tumor-infiltrating lymphocytes in situ

1 reference

12 December 2020