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

Brian P. Wellensiek, Andrew C. Larsen, Bret Stephens, Kim Kukurba, Karl Waern, Natalia Briones, Li Liu, Michael Snyder, Bertram L. Jacobs, Sudhir Kumar, John C. Chaput

Research output: Contribution to journalArticle

17 Citations (Scopus)

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 languageEnglish (US)
Pages (from-to)747-750
Number of pages4
JournalNature Methods
Volume10
Issue number8
DOIs
StatePublished - Aug 2013

Fingerprint

Bearings (structural)
Set theory
Genes
Display devices
Cells
Throughput
Genome
RNA
High-Throughput Nucleotide Sequencing
Messenger RNA
Human Genome
Cultured Cells
In Vitro Techniques

ASJC Scopus subject areas

  • Biotechnology
  • Molecular Biology
  • Biochemistry
  • Cell Biology

Cite this

Wellensiek, B. P., Larsen, A. C., Stephens, B., Kukurba, K., Waern, K., Briones, N., ... Chaput, J. C. (2013). Genome-wide profiling of human cap-independent translation-enhancing elements. Nature Methods, 10(8), 747-750. https://doi.org/10.1038/nmeth.2522

Genome-wide profiling of human cap-independent translation-enhancing elements. / Wellensiek, Brian P.; Larsen, Andrew C.; Stephens, Bret; Kukurba, Kim; Waern, Karl; Briones, Natalia; Liu, Li; Snyder, Michael; Jacobs, Bertram L.; Kumar, Sudhir; Chaput, John C.

In: Nature Methods, Vol. 10, No. 8, 08.2013, p. 747-750.

Research output: Contribution to journalArticle

Wellensiek, BP, Larsen, AC, Stephens, B, Kukurba, K, Waern, K, Briones, N, Liu, L, Snyder, M, Jacobs, BL, Kumar, S & Chaput, JC 2013, 'Genome-wide profiling of human cap-independent translation-enhancing elements', Nature Methods, vol. 10, no. 8, pp. 747-750. https://doi.org/10.1038/nmeth.2522
Wellensiek BP, Larsen AC, Stephens B, Kukurba K, Waern K, Briones N et al. Genome-wide profiling of human cap-independent translation-enhancing elements. Nature Methods. 2013 Aug;10(8):747-750. https://doi.org/10.1038/nmeth.2522
Wellensiek, Brian P. ; Larsen, Andrew C. ; Stephens, Bret ; Kukurba, Kim ; Waern, Karl ; Briones, Natalia ; Liu, Li ; Snyder, Michael ; Jacobs, Bertram L. ; Kumar, Sudhir ; Chaput, John C. / Genome-wide profiling of human cap-independent translation-enhancing elements. In: Nature Methods. 2013 ; Vol. 10, No. 8. pp. 747-750.
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