Genomic variations in non-coding RNAs: Structure, function and regulation

被引：80

作者：

Bhartiya, Deeksha

Scaria, Vinod ^{[1
]}

机构：

[1] CSIR Inst Genom & Integrat Biol, GN Ramachandran Knowledge Ctr Genome Informat, Mall Rd, Delhi 110007, India

来源：

GENOMICS | 2016年 / 107卷 / 2-3期

关键词：

Humans; Variations; Non-coding RNAs; MicroRNAs; SnoRNAs; Long non-coding RNAs; SELECTIVE 2'-HYDROXYL ACYLATION; SINGLE NUCLEOTIDE POLYMORPHISMS; MICRORNA-RELATED GENES; SECONDARY STRUCTURE; CANCER-RISK; COMPREHENSIVE DATABASE; WEB SERVER; WIDE IDENTIFICATION; PRE-MICRORNAS; BREAST-CANCER;

D O I：

10.1016/j.ygeno.2016.01.005

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 [微生物学]; 090105 [作物生产系统与生态工程];

摘要：

The last decade has seen tremendous improvements in the understanding of human variations and their association with human traits and diseases. The availability of high-resolution map of the human transcriptome and the discovery of a large number of non-protein coding RNA genes has created a paradigm shift in the understanding of functional variations in non-coding RNAs. Several groups in recent years have reported functional variations and trait or disease associated variations mapping to non-coding RNAs including microRNAs, small nucleolar RNAs and long non-coding RNAs. The understanding of the functional consequences of variations in non-coding RNAs has been largely restricted by the limitations in understanding the functionalities of the non-coding RNAs. In this short review, we outline the current state-of-the-art of the field with emphasis on providing a conceptual outline as on how variations could modulate changes in the sequence, structure, and thereby the functionality of non-coding RNAs. (C) 2016 Elsevier Inc. All rights reserved.

引用

页码：59 / 68

页数：10

共 166 条

[1]

Mapping Human Genetic Diversity in Asia [J].

Abdulla, Mahmood Ameen ;

Ahmed, Ikhlak ;

Assawamakin, Anunchai ;

Bhak, Jong ;

Brahmachari, Samir K. ;

Calacal, Gayvelline C. ;

Chaurasia, Amit ;

Chen, Chien-Hsiun ;

Chen, Jieming ;

Chen, Yuan-Tsong ;

Chu, Jiayou ;

Cutiongco-de la Paz, Eva Maria C. ;

De Ungria, Maria Corazon A. ;

Delfin, Frederick C. ;

Edo, Juli ;

Fuchareon, Suthat ;

Ghang, Ho ;

Gojobori, Takashi ;

Han, Junsong ;

Ho, Sheng-Feng ;

Hoh, Boon Peng ;

Huang, Wei ;

Inoko, Hidetoshi ;

Jha, Pankaj ;

Jinam, Timothy A. ;

Jin, Li ;

Jung, Jongsun ;

Kangwanpong, Daoroong ;

Kampuansai, Jatupol ;

Kennedy, Giulia C. ;

Khurana, Preeti ;

Kim, Hyung-Lae ;

Kim, Kwangjoong ;

Kim, Sangsoo ;

Kim, Woo-Yeon ;

Kimm, Kuchan ;

Kimura, Ryosuke ;

Koike, Tomohiro ;

Kulawonganunchai, Supasak ;

Kumar, Vikrant ;

Lai, Poh San ;

Lee, Jong-Young ;

Lee, Sunghoon ;

Liu, Edison T. ;

Majumder, Partha P. ;

Mandapati, Kiran Kumar ;

Marzuki, Sangkot ;

Mitchell, Wayne ;

Mukerji, Mitali ;

Naritomi, Kenji .

SCIENCE, 2009, 326 (5959) :1541-1545

[2]

catRAPID omics: a web server for large-scale prediction of protein-RNA interactions [J].

Agostini, Federico ;

Zanzoni, Andreas ;

Klus, Petr ;

Marchese, Domenica ;

Cirillo, Davide ;

Gaetano Tartaglia, Gian .

BIOINFORMATICS, 2013, 29 (22) :2928-2930

[3]

PHDcleav: a SVM based method for predicting human Dicer cleavage sites using sequence and secondary structure of miRNA precursors [J].

Ahmed, Firoz ;

Kaundal, Rakesh ;

Raghava, Gajendra P. S. .

BMC BIOINFORMATICS, 2013, 14

[4]

Prediction of guide strand of microRNAs from its sequence and secondary structure [J].

Ahmed, Firoz ;

Ansari, Hifzur Rahman ;

Raghava, Gajendra P. S. .

BMC BIOINFORMATICS, 2009, 10

[5]

A map of human genome variation from population-scale sequencing [J].

Altshuler, David ;

Durbin, Richard M. ;

Abecasis, Goncalo R. ;

Bentley, David R. ;

Chakravarti, Aravinda ;

Clark, Andrew G. ;

Collins, Francis S. ;

De la Vega, Francisco M. ;

Donnelly, Peter ;

Egholm, Michael ;

Flicek, Paul ;

Gabriel, Stacey B. ;

Gibbs, Richard A. ;

Knoppers, Bartha M. ;

Lander, Eric S. ;

Lehrach, Hans ;

Mardis, Elaine R. ;

McVean, Gil A. ;

Nickerson, DebbieA. ;

Peltonen, Leena ;

Schafer, Alan J. ;

Sherry, Stephen T. ;

Wang, Jun ;

Wilson, Richard K. ;

Gibbs, Richard A. ;

Deiros, David ;

Metzker, Mike ;

Muzny, Donna ;

Reid, Jeff ;

Wheeler, David ;

Wang, Jun ;

Li, Jingxiang ;

Jian, Min ;

Li, Guoqing ;

Li, Ruiqiang ;

Liang, Huiqing ;

Tian, Geng ;

Wang, Bo ;

Wang, Jian ;

Wang, Wei ;

Yang, Huanming ;

Zhang, Xiuqing ;

Zheng, Huisong ;

Lander, Eric S. ;

Altshuler, David L. ;

Ambrogio, Lauren ;

Bloom, Toby ;

Cibulskis, Kristian ;

Fennell, Tim J. ;

Gabriel, Stacey B. .

NATURE, 2010, 467 (7319) :1061-1073

[6]

Integrating common and rare genetic variation in diverse human populations [J].

Altshuler, David M. ;

Gibbs, Richard A. ;

Peltonen, Leena ;

Dermitzakis, Emmanouil ;

Schaffner, Stephen F. ;

Yu, Fuli ;

Bonnen, Penelope E. ;

de Bakker, Paul I. W. ;

Deloukas, Panos ;

Gabriel, Stacey B. ;

Gwilliam, Rhian ;

Hunt, Sarah ;

Inouye, Michael ;

Jia, Xiaoming ;

Palotie, Aarno ;

Parkin, Melissa ;

Whittaker, Pamela ;

Chang, Kyle ;

Hawes, Alicia ;

Lewis, Lora R. ;

Ren, Yanru ;

Wheeler, David ;

Muzny, Donna Marie ;

Barnes, Chris ;

Darvishi, Katayoon ;

Hurles, Matthew ;

Korn, Joshua M. ;

Kristiansson, Kati ;

Lee, Charles ;

McCarroll, Steven A. ;

Nemesh, James ;

Keinan, Alon ;

Montgomery, Stephen B. ;

Pollack, Samuela ;

Price, Alkes L. ;

Soranzo, Nicole ;

Gonzaga-Jauregui, Claudia ;

Anttila, Verneri ;

Brodeur, Wendy ;

Daly, Mark J. ;

Leslie, Stephen ;

McVean, Gil ;

Moutsianas, Loukas ;

Nguyen, Huy ;

Zhang, Qingrun ;

Ghori, Mohammed J. R. ;

McGinnis, Ralph ;

McLaren, William ;

Takeuchi, Fumihiko ;

Grossman, Sharon R. .

NATURE, 2010, 467 (7311) :52-58

[7]

[Anonymous], ACTA DIABETOL

[8]

[Anonymous], RNA STRUCTURES AFFEC

[9]

[Anonymous], MOL CARCINOG

[10]

The expanding snoRNA world [J].

Bachellerie, JP ;

Cavaillé, J ;

Hüttenhofer, A .

BIOCHIMIE, 2002, 84 (08) :775-790

← 1 2 3 4 5 6 7 8 9 10 →