Analysis of circular RNA (circRNA) expression from RNA-Seq data can be performed with different algorithms and analysis pipelines, tools allowing the extraction of heterogeneous information on the expression of this novel class of RNAs. Computational pipelines were developed to facilitate the analysis of circRNA expression by leveraging different public tools in easy-to-use pipelines. This chapter describes the complete workflow for a computationally reproducible analysis of circRNA expression starting for a public RNA-Seq experiment. The main steps of circRNA prediction, annotation, classification, sequence reconstruction, quantification, and differential expression are illustrated.

Computational Analysis of circRNA Expression Data

Ferrero G.;Licheri N.;De Bortoli M.;Calogero R. A.;Beccuti M.;Cordero F.
2021

Abstract

Analysis of circular RNA (circRNA) expression from RNA-Seq data can be performed with different algorithms and analysis pipelines, tools allowing the extraction of heterogeneous information on the expression of this novel class of RNAs. Computational pipelines were developed to facilitate the analysis of circRNA expression by leveraging different public tools in easy-to-use pipelines. This chapter describes the complete workflow for a computationally reproducible analysis of circRNA expression starting for a public RNA-Seq experiment. The main steps of circRNA prediction, annotation, classification, sequence reconstruction, quantification, and differential expression are illustrated.
Methods in Molecular Biology
Humana Press Inc.
2284
181
192
978-1-0716-1306-1
978-1-0716-1307-8
Circular RNAs; Noncoding RNAs; RNA sequencing; Algorithms; Computational Biology; Datasets as Topic; Humans; RNA, Circular; RNA, Untranslated; RNA-Seq; Sequence Analysis, RNA; Software; Transcriptome
Ferrero G.; Licheri N.; De Bortoli M.; Calogero R.A.; Beccuti M.; Cordero F.
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Utilizza questo identificativo per citare o creare un link a questo documento: http://hdl.handle.net/2318/1797838
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