小RNA测序文库的生物信息学分析

Bioinformatic Analysis of Small RNA Sequencing Libraries.

作者信息

Chávez Montes Ricardo A, Jaimes-Miranda Fabiola, de Folter Stefan

机构信息

Unidad de Genómica Avanzada / Laboratorio Nacional de Genómica para la Biodiversidad (LANGEBIO), Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional (CINVESTAV-IPN), Irapuato, Guanajuato, Mexico.

CONACyT-Instituto Potosino de Investigación Científica y Tecnológica AC / División de Biología Molecular, San Luis Potosí, San Luis Potosí, Mexico.

出版信息

Methods Mol Biol. 2019;1932:51-63. doi: 10.1007/978-1-4939-9042-9_4.

DOI:10.1007/978-1-4939-9042-9_4

PMID:30701491

Abstract

Bioinformatic analysis of small RNA sequencing libraries consists of transforming a series of small RNA sequencing experiment fastq files into a table containing small RNA sequences and their abundance. This is achieved by cleaning the reads, aligning the cleaned reads to a reference, and parsing the alignment results. In this protocol we present the most common option, and the rationale, for each of these steps.

摘要

小RNA测序文库的生物信息学分析包括将一系列小RNA测序实验的fastq文件转化为一个包含小RNA序列及其丰度的表格。这通过对 reads 进行清洗、将清洗后的 reads 与参考序列进行比对以及解析比对结果来实现。在本方案中，我们针对这些步骤中的每一步都给出了最常见的选项及其原理。