RNA‐Seq methods for transcriptome analysis

R Hrdlickova, M Toloue, B Tian - Wiley Interdisciplinary …, 2017 - Wiley Online Library
Deep sequencing has been revolutionizing biology and medicine in recent years, providing
single base‐level precision for our understanding of nucleic acid sequences in high …

RNA sequencing and analysis

KR Kukurba, SB Montgomery - Cold Spring Harbor Protocols, 2015 - cshprotocols.cshlp.org
RNA sequencing (RNA-Seq) uses the capabilities of high-throughput sequencing methods
to provide insight into the transcriptome of a cell. Compared to previous Sanger sequencing …

[HTML][HTML] A survey of best practices for RNA-seq data analysis

A Conesa, P Madrigal, S Tarazona, D Gomez-Cabrero… - Genome biology, 2016 - Springer
Abstract RNA-sequencing (RNA-seq) has a wide variety of applications, but no single
analysis pipeline can be used in all cases. We review all of the major steps in RNA-seq data …

Demystifying emerging bulk RNA-Seq applications: the application and utility of bioinformatic methodology

AS Thind, I Monga, PK Thakur, P Kumari… - Briefings in …, 2021 - academic.oup.com
Significant innovations in next-generation sequencing techniques and bioinformatics tools
have impacted our appreciation and understanding of RNA. Practical RNA sequencing …

Advanced applications of RNA sequencing and challenges

Y Han, S Gao, K Muegge, W Zhang… - … and biology insights, 2015 - journals.sagepub.com
Next-generation sequencing technologies have revolutionarily advanced sequence-based
research with the advantages of high-throughput, high-sensitivity, and high-speed. RNA-seq …

[HTML][HTML] Gaining comprehensive biological insight into the transcriptome by performing a broad-spectrum RNA-seq analysis

SME Sahraeian, M Mohiyuddin, R Sebra… - Nature …, 2017 - nature.com
Abstract RNA-sequencing (RNA-seq) is an essential technique for transcriptome studies,
hundreds of analysis tools have been developed since it was debuted. Although recent …

[HTML][HTML] RNA-seq: from technology to biology

S Marguerat, J Bähler - Cellular and molecular life sciences, 2010 - Springer
Next-generation sequencing technologies are now being exploited not only to analyse static
genomes, but also dynamic transcriptomes in an approach termed RNA-seq. Although these …

[HTML][HTML] Analysis of whole transcriptome sequencing data: workflow and software

IS Yang, S Kim - Genomics & informatics, 2015 - ncbi.nlm.nih.gov
RNA is a polymeric molecule implicated in various biological processes, such as the coding,
decoding, regulation, and expression of genes. Numerous studies have examined RNA …

[HTML][HTML] Informatics for RNA sequencing: a web resource for analysis on the cloud

M Griffith, JR Walker, NC Spies… - PLoS computational …, 2015 - journals.plos.org
Massively parallel RNA sequencing (RNA-seq) has rapidly become the assay of choice for
interrogating RNA transcript abundance and diversity. This article provides a detailed …

Current RNA-seq methodology reporting limits reproducibility

J Simoneau, S Dumontier, R Gosselin… - Briefings in …, 2021 - academic.oup.com
Ribonucleic acid sequencing (RNA-seq) identifies and quantifies RNA molecules from a
biological sample. Transformation from raw sequencing data to meaningful gene or isoform …