Journal ArticleDOI
Evolution to the rescue: using comparative genomics to understand long non-coding RNAs
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TLDR
The lessons learned so far from genome-wide mapping and comparisons of lncRNAs across different species are reviewed and how comparative analyses can help to understand lncRNA function are discussed.Abstract:
Long non-coding RNAs (lncRNAs) have emerged in recent years as major players in a multitude of pathways across species, but it remains challenging to understand which of them are important and how their functions are performed. Comparative sequence analysis has been instrumental for studying proteins and small RNAs, but the rapid evolution of lncRNAs poses new challenges that demand new approaches. Here, I review the lessons learned so far from genome-wide mapping and comparisons of lncRNAs across different species. I also discuss how comparative analyses can help us to understand lncRNA function and provide practical considerations for examining functional conservation of lncRNA genes.read more
Citations
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Journal ArticleDOI
An atlas of human long non-coding RNAs with accurate 5′ ends
Chung-Chau Hon,Jordan A. Ramilowski,Jayson Harshbarger,Nicolas Bertin,Nicolas Bertin,Owen J. L. Rackham,Owen J. L. Rackham,Julian Gough,Elena Denisenko,Sebastian Schmeier,Thomas M. Poulsen,Jessica Severin,Marina Lizio,Hideya Kawaji,Takeya Kasukawa,Masayoshi Itoh,A. Maxwell Burroughs,Shohei Noma,Sarah Djebali,Sarah Djebali,Tanvir Alam,Yulia A. Medvedeva,Alison C. Testa,Leonard Lipovich,Chi Wai Yip,Imad Abugessaisa,Mickal Mendez,Akira Hasegawa,Dave Tang,Timo Lassmann,Peter Heutink,Magda Babina,Christine A. Wells,Christine A. Wells,Soichi Kojima,Yukio Nakamura,Harukazu Suzuki,Carsten O. Daub,Michiel J. L. de Hoon,Erik Arner,Yoshihide Hayashizaki,Piero Carninci,Alistair R. R. Forrest +42 more
TL;DR: This work integrates multiple transcript collections to generate a comprehensive atlas of 27,919 human lncRNA genes with high-confidence 5′ ends and expression profiles across 1,829 samples from the major human primary cell types and tissues, identifying 19,175 potentially functional lncRNAs in the human genome.
Journal ArticleDOI
The multidimensional mechanisms of long noncoding RNA function
TL;DR: The functional interactions that lncRNAs establish with other molecules as well as the relationship between lncRNA transcription and function are discussed and some mechanisms are shared with other types of genes.
MicroRNAs: Target Recognition and Regulatory Functions
TL;DR: In this article, a review outlines the current understanding of miRNA target recognition in animals and discusses the widespread impact of miRNAs on both the expression and evolution of protein-coding genes.
Journal ArticleDOI
Regulation of gene expression by cis-acting long non-coding RNAs.
Noa Gil,Igor Ulitsky +1 more
TL;DR: Recent insights are discussed into the evolution and functions of cis-acting lncRNAs, transcriptional units highly adept at contributing to gene regulatory networks and to the generation of fine-tuned spatial and temporal gene expression programmes.
Journal ArticleDOI
LNCcation: lncRNA localization and function.
TL;DR: In this paper, the authors summarize current knowledge of long noncoding RNAs subcellular localization, factors controlling their localization, emerging themes, including the role of lncRNA isoforms and the involvement of LncRNAs in phase separation bodies, and the implications of LNCRNA localization on their function and on cellular behavior.
References
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