长基因间非编码RNA的鉴定与表达分析

Identification and Expression Analysis of Long Intergenic Noncoding RNAs.

作者信息

Sun Ming-An, Zhai Rihong, Zhang Qing, Wang Yejun

机构信息

Epigenomics and Computational Biology Lab, Biocomplexity Institute of Virginia Tech, Blacksburg, VA, USA.

School of Public Health, Shenzhen University Health Science Center, Shenzhen, China.

出版信息

Methods Mol Biol. 2018;1751:139-152. doi: 10.1007/978-1-4939-7710-9_10.

DOI:10.1007/978-1-4939-7710-9_10

PMID:29508295

Abstract

Long intergenic noncoding RNAs (lincRNAs) have caught increasing attention in recent years. The advance of RNA-Seq has greatly facilitated the discovery of novel lincRNAs. However, the computational analysis of lincRNAs is still challenging. In this protocol, we presented a step-by-step protocol for computational analyses of lincRNAs, including read processing and alignment, transcript assembly, lincRNA identification and annotation, and differential expression analysis.

摘要

长链基因间非编码RNA（lincRNAs）近年来受到越来越多的关注。RNA测序技术的进步极大地促进了新型lincRNAs的发现。然而，lincRNAs的计算分析仍然具有挑战性。在本方案中，我们提出了一个用于lincRNAs计算分析的分步方案，包括 reads 处理与比对、转录本组装、lincRNA鉴定与注释以及差异表达分析。