Literature DB >> 34160810

Experimental Validation of the Noncoding Potential for lncRNAs.

Emily A Dangelmaier1, Ashish Lal2.   

Abstract

In recent years, long noncoding RNAs (lncRNAs) have been increasingly recognized as critical regulators of a broad spectrum of cellular processes. Recent advancements in proteomic technologies have uncovered that an abundance of noncoding genes, including lncRNAs, have been misannotated and in reality encode proteins. This revelation underscores the need to accurately determine the coding potential of lncRNAs prior to assessment of their functional mechanisms. Here, we detail numerous experimental techniques useful in the determination of lncRNA coding potential. Several of these methods are doubly useful in that they may also be employed in studying the function of a lncRNA, be it via an RNA, protein, or both.

Keywords:  Coding potential; Long noncoding RNAs; Micropeptides; Translation; lncRNAs

Year:  2021        PMID: 34160810     DOI: 10.1007/978-1-0716-1581-2_15

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  37 in total

1.  A micropeptide encoded by a putative long noncoding RNA regulates muscle performance.

Authors:  Douglas M Anderson; Kelly M Anderson; Chi-Lun Chang; Catherine A Makarewich; Benjamin R Nelson; John R McAnally; Prasad Kasaragod; John M Shelton; Jen Liou; Rhonda Bassel-Duby; Eric N Olson
Journal:  Cell       Date:  2015-01-29       Impact factor: 41.582

Review 2.  Emerging evidence for functional peptides encoded by short open reading frames.

Authors:  Shea J Andrews; Joseph A Rothnagel
Journal:  Nat Rev Genet       Date:  2014-02-11       Impact factor: 53.242

Review 3.  Functional Classification and Experimental Dissection of Long Noncoding RNAs.

Authors:  Florian Kopp; Joshua T Mendell
Journal:  Cell       Date:  2018-01-25       Impact factor: 41.582

4.  A Peptide Encoded by a Putative lncRNA HOXB-AS3 Suppresses Colon Cancer Growth.

Authors:  Jin-Zhou Huang; Min Chen; Xing-Cheng Gao; Song Zhu; Hongyang Huang; Min Hu; Huifang Zhu; Guang-Rong Yan
Journal:  Mol Cell       Date:  2017-10-05       Impact factor: 17.970

Review 5.  Long Noncoding RNAs in Cancer Pathways.

Authors:  Adam M Schmitt; Howard Y Chang
Journal:  Cancer Cell       Date:  2016-04-11       Impact factor: 31.743

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

Authors:  Nicholas T Ingolia; Liana F Lareau; Jonathan S Weissman
Journal:  Cell       Date:  2011-11-03       Impact factor: 41.582

Review 7.  Cellular functions of long noncoding RNAs.

Authors:  Run-Wen Yao; Yang Wang; Ling-Ling Chen
Journal:  Nat Cell Biol       Date:  2019-05-02       Impact factor: 28.824

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

Authors:  Nicholas T Ingolia; Sina Ghaemmaghami; John R S Newman; Jonathan S Weissman
Journal:  Science       Date:  2009-02-12       Impact factor: 47.728

9.  LncRNA-Six1 Encodes a Micropeptide to Activate Six1 in Cis and Is Involved in Cell Proliferation and Muscle Growth.

Authors:  Bolin Cai; Zhenhui Li; Manting Ma; Zhijun Wang; Peigong Han; Bahareldin A Abdalla; Qinghua Nie; Xiquan Zhang
Journal:  Front Physiol       Date:  2017-04-20       Impact factor: 4.566

10.  LncRNA EPR controls epithelial proliferation by coordinating Cdkn1a transcription and mRNA decay response to TGF-β.

Authors:  Martina Rossi; Gabriele Bucci; Dario Rizzotto; Domenico Bordo; Matteo J Marzi; Margherita Puppo; Arielle Flinois; Domenica Spadaro; Sandra Citi; Laura Emionite; Michele Cilli; Francesco Nicassio; Alberto Inga; Paola Briata; Roberto Gherzi
Journal:  Nat Commun       Date:  2019-04-29       Impact factor: 14.919

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