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

0555595 - ÚMG 2022 RIV GB eng J - Journal Article
Thind, A.S. - Monga, I. - Thakur, Prasoon-Kumar - Kumari, P. - Dindhoria, K. - Krzak, M. - Ranson, M. - Ashford, B.
Demystifying emerging bulk RNA-Seq applications: the application and utility of bioinformatic methodology.
Briefings in Bioinformatics. Roč. 22, č. 6 (2021), č. článku bbab259. ISSN 1467-5463. E-ISSN 1477-4054
R&D Projects: GA ČR GA20-04099S
Institutional support: RVO:68378050
Keywords : next-generation sequencing * RNA-Seq applications * RNA-Seq genomics * bioinformatics
OECD category: Biochemistry and molecular biology
Impact factor: 13.994, year: 2021
Method of publishing: Limited access
https://academic.oup.com/bib/article-abstract/22/6/bbab259/6330938?redirectedFrom=fulltext&login=false

Significant innovations in next-generation sequencing techniques and bioinformatics tools have impacted our appreciation and understanding of RNA. Practical RNA sequencing (RNA-Seq) applications have evolved in conjunction with sequence technology and bioinformatic tools advances. In most projects, bulk RNA-Seq data is used to measure gene expression patterns, isoform expression, alternative splicing and single-nucleotide polymorphisms. However, RNA-Seq holds far more hidden biological information including details of copy number alteration, microbial contamination, transposable elements, cell type (deconvolution) and the presence of neoantigens. Recent novel and advanced bioinformatic algorithms developed the capacity to retrieve this information from bulk RNA-Seq data, thus broadening its scope. The focus of this review is to comprehend the emerging bulk RNA-Seq-based analyses, emphasizing less familiar and underused applications. In doing so, we highlight the power of bulk RNA-Seq in providing biological insights.
Permanent Link: http://hdl.handle.net/11104/0330062