Computational challenges, tools, and resources for analyzing co- and post-transcriptional events in high throughput

Emad Bahrami-Samani, Dat T. Vo, Patricia Rosa de Araujo, Christine Vogel, Andrew D. Smith, Luiz O F Penalva, Philip J. Uren

Research output: Contribution to journalArticle

Abstract

Co- and post-transcriptional regulation of gene expression is complex and multifaceted, spanning the complete RNA lifecycle from genesis to decay. High-throughput profiling of the constituent events and processes is achieved through a range of technologies that continue to expand and evolve. Fully leveraging the resulting data is nontrivial, and requires the use of computational methods and tools carefully crafted for specific data sources and often intended to probe particular biological processes. Drawing upon databases of information pre-compiled by other researchers can further elevate analyses. Within this review, we describe the major co- and post-transcriptional events in the RNA lifecycle that are amenable to high-throughput profiling. We place specific emphasis on the analysis of the resulting data, in particular the computational tools and resources available, as well as looking toward future challenges that remain to be addressed.

Original languageEnglish (US)
Pages (from-to)291-310
Number of pages20
JournalWiley Interdisciplinary Reviews: RNA
Volume6
Issue number3
DOIs
StatePublished - May 1 2015

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Throughput
RNA
Biological Phenomena
Information Storage and Retrieval
Gene Expression Regulation
Computational methods
Gene expression
Research Personnel
Databases
Technology

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology

Cite this

Computational challenges, tools, and resources for analyzing co- and post-transcriptional events in high throughput. / Bahrami-Samani, Emad; Vo, Dat T.; de Araujo, Patricia Rosa; Vogel, Christine; Smith, Andrew D.; Penalva, Luiz O F; Uren, Philip J.

In: Wiley Interdisciplinary Reviews: RNA, Vol. 6, No. 3, 01.05.2015, p. 291-310.

Research output: Contribution to journalArticle

Bahrami-Samani, Emad ; Vo, Dat T. ; de Araujo, Patricia Rosa ; Vogel, Christine ; Smith, Andrew D. ; Penalva, Luiz O F ; Uren, Philip J. / Computational challenges, tools, and resources for analyzing co- and post-transcriptional events in high throughput. In: Wiley Interdisciplinary Reviews: RNA. 2015 ; Vol. 6, No. 3. pp. 291-310.
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