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CircRNAs are emerging as functional RNAs involved in the regulation of biological processes as well as in disease and cancer mechanisms. Current computational methods for circRNA identification from RNA-seq experiments are characterized by low discovery rates and performance dependent on the analysed data set. We developed CirComPara2 (https:\/\/github.com\/egaffo\/CirComPara2), a new automated computational pipeline for circRNA discovery and quantification, which consistently achieves high recall rates without losing precision by combining multiple circRNA detection methods. In our benchmark analysis, CirComPara2 outperformed state-of-the-art circRNA discovery tools and proved to be a reliable and robust method for comprehensive transcriptome characterization.<\/jats:p>","DOI":"10.1093\/bib\/bbab418","type":"journal-article","created":{"date-parts":[[2021,9,13]],"date-time":"2021-09-13T15:13:14Z","timestamp":1631545994000},"source":"Crossref","is-referenced-by-count":50,"title":["Sensitive, reliable and robust circRNA detection from RNA-seq with CirComPara2"],"prefix":"10.1093","volume":"23","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6338-7677","authenticated-orcid":false,"given":"Enrico","family":"Gaffo","sequence":"first","affiliation":[{"name":"Department of Molecular Medicine, University of Padova, Padova, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Alessia","family":"Buratin","sequence":"additional","affiliation":[{"name":"Department of Molecular Medicine, University of Padova, Padova, Italy; Department of Biology, University of Padova, Padova, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Anna","family":"Dal Molin","sequence":"additional","affiliation":[{"name":"Department of Molecular Medicine, University of Padova, Padova, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8240-3070","authenticated-orcid":false,"given":"Stefania","family":"Bortoluzzi","sequence":"additional","affiliation":[{"name":"Department of Molecular Medicine, University of Padova, Padova, Italy; Interdepartmental Center For Innovative Biotechnologies, University of Padova, Padova, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2021,10,26]]},"reference":[{"key":"2022011921220200600_ref1","doi-asserted-by":"crossref","first-page":"226","DOI":"10.1016\/j.tcb.2019.12.004","article-title":"Biogenesis and functions of circular RNAs come into 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