AltORFev facilitates the prediction of alternative open reading frames in eukaryotic mRNAs

Alex V. Kochetov; Jens Allmer; Alexandra I. Klimenko; Bulat S. Zuraev; Yury G. Matushkin; Sergey A. Lashin; John Hancock

doi:10.1093/bioinformatics/btw736

AltORFev facilitates the prediction of alternative open reading frames in eukaryotic mRNAs

Alex V. Kochetov, Jens Allmer, Alexandra I. Klimenko, Bulat S. Zuraev, Yury G. Matushkin, Sergey A. Lashin, John Hancock

Результат исследования: Научные публикации в периодических изданиях › статья › рецензирование

5 Цитирования (Scopus)

Аннотация

Motivation: Protein synthesis is not a straight forward process and one gene locus can produce many isoforms, for example, by starting mRNA translation from alternative start sites. altORF evaluator (altORFev) predicts alternative open reading frames within eukaryotic mRNA translated by a linear scanning mechanism and its modifications (leaky scanning and reinitiation). The program reveals the efficiently translated altORFs recognized by the majority of 40S ribosomal sub-units landing on the 5′-end of an mRNA. This information aids to reveal the functions of eukaryotic genes connected to synthesis of either unknown isoforms of annotated proteins or new unrelated polypeptides.

Язык оригинала	английский
Страницы (с-по)	923-925
Число страниц	3
Журнал	Bioinformatics
Том	33
Номер выпуска	6
DOI	https://doi.org/10.1093/bioinformatics/btw736
Состояние	Опубликовано - 15 мар 2017

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10.1093/bioinformatics/btw736

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title = "AltORFev facilitates the prediction of alternative open reading frames in eukaryotic mRNAs",

abstract = "Motivation: Protein synthesis is not a straight forward process and one gene locus can produce many isoforms, for example, by starting mRNA translation from alternative start sites. altORF evaluator (altORFev) predicts alternative open reading frames within eukaryotic mRNA translated by a linear scanning mechanism and its modifications (leaky scanning and reinitiation). The program reveals the efficiently translated altORFs recognized by the majority of 40S ribosomal sub-units landing on the 5′-end of an mRNA. This information aids to reveal the functions of eukaryotic genes connected to synthesis of either unknown isoforms of annotated proteins or new unrelated polypeptides.",

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author = "Kochetov, {Alex V.} and Jens Allmer and Klimenko, {Alexandra I.} and Zuraev, {Bulat S.} and Matushkin, {Yury G.} and Lashin, {Sergey A.} and John Hancock",

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AltORFev facilitates the prediction of alternative open reading frames in eukaryotic mRNAs. / Kochetov, Alex V.; Allmer, Jens; Klimenko, Alexandra I.; Zuraev, Bulat S.; Matushkin, Yury G.; Lashin, Sergey A.; Hancock, John.

В: Bioinformatics, Том 33, № 6, 15.03.2017, стр. 923-925.

Результат исследования: Научные публикации в периодических изданиях › статья › рецензирование

TY - JOUR

T1 - AltORFev facilitates the prediction of alternative open reading frames in eukaryotic mRNAs

AU - Kochetov, Alex V.

AU - Allmer, Jens

AU - Klimenko, Alexandra I.

AU - Zuraev, Bulat S.

AU - Matushkin, Yury G.

AU - Lashin, Sergey A.

AU - Hancock, John

PY - 2017/3/15

Y1 - 2017/3/15

N2 - Motivation: Protein synthesis is not a straight forward process and one gene locus can produce many isoforms, for example, by starting mRNA translation from alternative start sites. altORF evaluator (altORFev) predicts alternative open reading frames within eukaryotic mRNA translated by a linear scanning mechanism and its modifications (leaky scanning and reinitiation). The program reveals the efficiently translated altORFs recognized by the majority of 40S ribosomal sub-units landing on the 5′-end of an mRNA. This information aids to reveal the functions of eukaryotic genes connected to synthesis of either unknown isoforms of annotated proteins or new unrelated polypeptides.

AB - Motivation: Protein synthesis is not a straight forward process and one gene locus can produce many isoforms, for example, by starting mRNA translation from alternative start sites. altORF evaluator (altORFev) predicts alternative open reading frames within eukaryotic mRNA translated by a linear scanning mechanism and its modifications (leaky scanning and reinitiation). The program reveals the efficiently translated altORFs recognized by the majority of 40S ribosomal sub-units landing on the 5′-end of an mRNA. This information aids to reveal the functions of eukaryotic genes connected to synthesis of either unknown isoforms of annotated proteins or new unrelated polypeptides.

KW - Eukaryota/genetics

KW - Genomics/methods

KW - Open Reading Frames

KW - Protein Biosynthesis

KW - RNA, Messenger/metabolism

KW - Ribosome Subunits, Small, Eukaryotic/metabolism

KW - Sequence Analysis, RNA/methods

KW - Software

KW - PROTEIN

KW - INITIATION

KW - TRANSLATION

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U2 - 10.1093/bioinformatics/btw736

DO - 10.1093/bioinformatics/btw736

M3 - Article

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VL - 33

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EP - 925

JO - Bioinformatics

JF - Bioinformatics

SN - 1367-4803

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