Literature DB >> 25777523

Computational approaches towards understanding human long non-coding RNA biology.

Saakshi Jalali1, Shruti Kapoor1, Ambily Sivadas2, Deeksha Bhartiya1, Vinod Scaria1.   

Abstract

Long non-coding RNAs (lncRNAs) form the largest class of non-protein coding genes in the human genome. While a small subset of well-characterized lncRNAs has demonstrated their significant role in diverse biological functions like chromatin modifications, post-transcriptional regulation, imprinting etc., the functional significance of a vast majority of them still remains an enigma. Increasing evidence of the implications of lncRNAs in various diseases including cancer and major developmental processes has further enhanced the need to gain mechanistic insights into the lncRNA functions. Here, we present a comprehensive review of the various computational approaches and tools available for the identification and annotation of long non-coding RNAs. We also discuss a conceptual roadmap to systematically explore the functional properties of the lncRNAs using computational approaches.
© The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

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Year:  2015        PMID: 25777523     DOI: 10.1093/bioinformatics/btv148

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  25 in total

1.  Age-Related Expression of a Repeat-Rich Intergenic Long Noncoding RNA in the Rat Brain.

Authors:  Sukhleen Kour; Pramod C Rath
Journal:  Mol Neurobiol       Date:  2016-01-11       Impact factor: 5.590

2.  Navigating the dynamic landscape of long noncoding RNA and protein-coding gene annotations in GENCODE.

Authors:  Saakshi Jalali; Shrey Gandhi; Vinod Scaria
Journal:  Hum Genomics       Date:  2016-10-28       Impact factor: 4.639

3.  Long Non-Coding RNA Review and Implications in Lung Diseases.

Authors:  Michael Groot; Duo Zhang; Yang Jin
Journal:  JSM Bioinform Genom Proteom       Date:  2018-06-30

Review 4.  Regulatory Non-Coding RNAs in Familial Hypercholesterolemia, Theranostic Applications.

Authors:  Hani Keshavarz Alikhani; Mahsa Pourhamzeh; Homeyra Seydi; Bahare Shokoohian; Nikoo Hossein-Khannazer; Fatemeh Jamshidi-Adegani; Sulaiman Al-Hashmi; Moustapha Hassan; Massoud Vosough
Journal:  Front Cell Dev Biol       Date:  2022-06-23

Review 5.  Long Non Coding RNA Based Regulation of Cerebrovascular Endothelium.

Authors:  Samatha Mathew; Sridhar Sivasubbu
Journal:  Front Genet       Date:  2022-04-13       Impact factor: 4.772

6.  Genome-wide identification of long noncoding RNA genes and their potential association with fecundity and virulence in rice brown planthopper, Nilaparvata lugens.

Authors:  Huamei Xiao; Zhuting Yuan; Dianhao Guo; Bofeng Hou; Chuanlin Yin; Wenqing Zhang; Fei Li
Journal:  BMC Genomics       Date:  2015-10-05       Impact factor: 3.969

7.  AnnoLnc: a web server for systematically annotating novel human lncRNAs.

Authors:  Mei Hou; Xing Tang; Feng Tian; Fangyuan Shi; Fenglin Liu; Ge Gao
Journal:  BMC Genomics       Date:  2016-11-16       Impact factor: 3.969

Review 8.  Long Non-coding RNAs: Mechanisms, Experimental, and Computational Approaches in Identification, Characterization, and Their Biomarker Potential in Cancer.

Authors:  Anshika Chowdhary; Venkata Satagopam; Reinhard Schneider
Journal:  Front Genet       Date:  2021-07-01       Impact factor: 4.599

Review 9.  Long non-coding RNA Databases in Cardiovascular Research.

Authors:  Frank Rühle; Monika Stoll
Journal:  Genomics Proteomics Bioinformatics       Date:  2016-04-02       Impact factor: 7.691

10.  EVLncRNAs: a manually curated database for long non-coding RNAs validated by low-throughput experiments.

Authors:  Bailing Zhou; Huiying Zhao; Jiafeng Yu; Chengang Guo; Xianghua Dou; Feng Song; Guodong Hu; Zanxia Cao; Yuanxu Qu; Yuedong Yang; Yaoqi Zhou; Jihua Wang
Journal:  Nucleic Acids Res       Date:  2018-01-04       Impact factor: 16.971

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