Genome-wide profiling of human cap-independent translation-enhancing elements

BP Wellensiek; AC Larsen; B Stephens; K Kukurba; K Waern; N Briones; L Liu; M Snyder; BL Jacobs; S Kumar; JC Chaput

Genome-wide profiling of human cap-independent translation-enhancing elements

BP Wellensiek
, AC Larsen
, B Stephens
, K Kukurba
, K Waern
, N Briones
, L Liu
, M Snyder
, BL Jacobs
, S Kumar
, JC Chaput

Nuclear Dynamics and Cancer (NDC)

Research output: Contribution to journal › Article › peer-review

31 Scopus citations

Abstract

We report an in vitro selection strategy to identify RNA sequences that mediate cap-independent initiation of translation. This method entails mRNA display of trillions of genomic fragments, selection for initiation of translation and high-throughput deep sequencing. We identified >12,000 translation-enhancing elements (TEEs) in the human genome, generated a high-resolution map of human TEE-bearing regions (TBRs), and validated the function of a subset of sequences in vitro and in cultured cells.

Original language	American English
Pages (from-to)	747-750
Number of pages	4
Journal	Nature Methods
Volume	10
Issue number	8
State	Published - Aug 2013

Keywords

5' Untranslated Regions
Gene Library
Genome, Human
HeLa Cells
High-Throughput Nucleotide Sequencing
Humans
Peptide Chain Initiation, Translational
Protein Biosynthesis
RNA, Messenger/genetics

Cite this

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title = "Genome-wide profiling of human cap-independent translation-enhancing elements",

abstract = "We report an in vitro selection strategy to identify RNA sequences that mediate cap-independent initiation of translation. This method entails mRNA display of trillions of genomic fragments, selection for initiation of translation and high-throughput deep sequencing. We identified >12,000 translation-enhancing elements (TEEs) in the human genome, generated a high-resolution map of human TEE-bearing regions (TBRs), and validated the function of a subset of sequences in vitro and in cultured cells.",

keywords = "5' Untranslated Regions, Gene Library, Genome, Human, HeLa Cells, High-Throughput Nucleotide Sequencing, Humans, Peptide Chain Initiation, Translational, Protein Biosynthesis, RNA, Messenger/genetics",

author = "BP Wellensiek and AC Larsen and B Stephens and K Kukurba and K Waern and N Briones and L Liu and M Snyder and BL Jacobs and S Kumar and JC Chaput",

year = "2013",

month = aug,

language = "American English",

volume = "10",

pages = "747--750",

journal = "Nature Methods",

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T1 - Genome-wide profiling of human cap-independent translation-enhancing elements

AU - Wellensiek, BP

AU - Larsen, AC

AU - Stephens, B

AU - Kukurba, K

AU - Waern, K

AU - Briones, N

AU - Liu, L

AU - Snyder, M

AU - Jacobs, BL

AU - Kumar, S

AU - Chaput, JC

PY - 2013/8

Y1 - 2013/8

N2 - We report an in vitro selection strategy to identify RNA sequences that mediate cap-independent initiation of translation. This method entails mRNA display of trillions of genomic fragments, selection for initiation of translation and high-throughput deep sequencing. We identified >12,000 translation-enhancing elements (TEEs) in the human genome, generated a high-resolution map of human TEE-bearing regions (TBRs), and validated the function of a subset of sequences in vitro and in cultured cells.

AB - We report an in vitro selection strategy to identify RNA sequences that mediate cap-independent initiation of translation. This method entails mRNA display of trillions of genomic fragments, selection for initiation of translation and high-throughput deep sequencing. We identified >12,000 translation-enhancing elements (TEEs) in the human genome, generated a high-resolution map of human TEE-bearing regions (TBRs), and validated the function of a subset of sequences in vitro and in cultured cells.

KW - 5' Untranslated Regions

KW - Gene Library

KW - Genome, Human

KW - HeLa Cells

KW - High-Throughput Nucleotide Sequencing

KW - Humans

KW - Peptide Chain Initiation, Translational

KW - Protein Biosynthesis

KW - RNA, Messenger/genetics

UR - https://www.scopus.com/pages/publications/84881481858

M3 - Article

C2 - 23770754

SN - 1548-7091

VL - 10

SP - 747

EP - 750

JO - Nature Methods

JF - Nature Methods

IS - 8

ER -

Genome-wide profiling of human cap-independent translation-enhancing elements

Abstract

Keywords

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