The circular RNome of primary breast cancer

Marcel Smid 1 Saskia Wilting 1 Katharina Uhr 1 F. Germán Rodríguez-González 1 Vanja de Weerd 1 Wendy J.C. Prager-van der Smissen 1 Michelle van der Vlugt-Daane 1 Anne van Galen 1 Serena Nik-Zainal 2, 3 Adam Butler 3 Sancha Martin 3 Helen Davies 3 Johan Staaf 4 Marc van de Vijver 5 Andrea Richardson 6, 7 Gaëten Macgrogan 8 Roberto Salgado 9, 10 Gert G.G.M. van den Eynden 10, 11 Colin Purdie 12 Alastair Thompson 12 Carlos Caldas 13 Paul Span 14 Fred C.G.J. Sweep 14 Peter Simpson 15 Sunil Lakhani 15 Steven van Laere 16 Christine Desmedt 9 Angelo Paradiso 17 Jorunn Eyfjord 18 Annegien Broeks 19 Anne Vincent-Salomon 20 Andrew Futreal 21 Stian Knappskog 22, 23 Tari King 24 Alain Viari 25, 26 Anne-Lise Børresen-Dale 27 Hendrik Stunnenberg 14 Mike Stratton 3 John Foekens 1 Anieta Sieuwerts 1 John W.M. Martens 1
Abstract : Circular RNAs (circRNAs) are a class of RNAs that is under increasing scrutiny, although their functional roles are debated. We analyzed RNA-seq data of 348 primary breast cancers and developed a method to identify circRNAs that does not rely on unmapped reads or known splice junctions. We identified 95,843 circRNAs, of which 20,441 were found recurrently. Of the circRNAs that match exon boundaries of the same gene, 668 showed a poor or even negative (R < 0.2) correlation with the expression level of the linear gene. In silico analysis showed only a minority (8.5%) of circRNAs could be explained by Corresponding author: m.smid@erasmusmc.nl Article published online before print. Article, supplemental material, and publication date are at
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Marcel Smid, Saskia Wilting, Katharina Uhr, F. Germán Rodríguez-González, Vanja de Weerd, et al.. The circular RNome of primary breast cancer. Genome Research, Cold Spring Harbor Laboratory Press, 2019, 29 (3), pp.356-366. ⟨10.1101/gr.238121.118⟩. ⟨hal-02338656⟩

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