The circular RNome of primary breast cancer
Marcel Smid
(1)
,
Saskia M 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 P Butler
(3)
,
Sancha Martin
(3)
,
Helen R Davies
(3)
,
Johan Staaf
(4)
,
Marc J van de Vijver
(5)
,
Andrea L Richardson
(6, 7)
,
Gaëten Macgrogan
(8)
,
Roberto Salgado
(9, 10)
,
Gert G.G.M. van den Eynden
(10, 11)
,
Colin A Purdie
(12)
,
Alastair M Thompson
(12)
,
Carlos Caldas
(13)
,
Paul N Span
(14)
,
Fred C.G.J. Sweep
(14)
,
Peter T Simpson
(15)
,
Sunil R Lakhani
(15)
,
Steven van Laere
(16)
,
Christine Desmedt
(9)
,
Angelo Paradiso
(17)
,
Jorunn Eyfjord
(18)
,
Annegien Broeks
(19)
,
Anne Vincent-Salomon
(20)
,
Andrew P Futreal
(21)
,
Stian Knappskog
(22, 23)
,
Tari King
(24)
,
Alain Viari
(25, 26)
,
Anne-Lise Børresen-Dale
(27)
,
Hendrik G Stunnenberg
(14)
,
Mike Stratton
(3)
,
John A Foekens
(1)
,
Anieta M Sieuwerts
(1)
,
John W.M. Martens
(1)
1
Erasmus MC -
Erasmus University Medical Center [Rotterdam]
2 CUH - Cambridge University Hospitals - NHS
3 The Wellcome Trust Sanger Institute [Cambridge]
4 Skane University Hospital [Lund]
5 AMC - Academic Medical Center - Academisch Medisch Centrum [Amsterdam]
6 Dana-Farber Cancer Institute [Boston]
7 BWH - Brigham & Women’s Hospital [Boston]
8 Institut Bergonié [Bordeaux]
9 Breast Cancer Translational Research Laboratory
10 Translational Cancer Research Unit [Antwerp]
11 Institut Jules Bordet [Bruxelles]
12 Department of Pathology [Dundee]
13 CAM - University of Cambridge [UK]
14 Radboud University Medical Center [Nijmegen]
15 USQ - University of Southern Queensland
16 UA - University of Antwerp
17 Istituto Tumori "Giovanni Paolo II" [Bari]
18 University of Iceland [Reykjavik]
19 NKI - Netherlands Cancer Institute
20 Génétique et Biologie du Développement
21 The University of Texas M.D. Anderson Cancer Center [Houston]
22 UiB - University of Bergen
23 Haukeland University Hospital
24 Memorial Sloane Kettering Cancer Center [New York]
25 Fondation Synergie Lyon Cancer [Lyon]
26 ERABLE - Equipe de recherche européenne en algorithmique et biologie formelle et expérimentale
27 Institute for Cancer Research [Oslo]
2 CUH - Cambridge University Hospitals - NHS
3 The Wellcome Trust Sanger Institute [Cambridge]
4 Skane University Hospital [Lund]
5 AMC - Academic Medical Center - Academisch Medisch Centrum [Amsterdam]
6 Dana-Farber Cancer Institute [Boston]
7 BWH - Brigham & Women’s Hospital [Boston]
8 Institut Bergonié [Bordeaux]
9 Breast Cancer Translational Research Laboratory
10 Translational Cancer Research Unit [Antwerp]
11 Institut Jules Bordet [Bruxelles]
12 Department of Pathology [Dundee]
13 CAM - University of Cambridge [UK]
14 Radboud University Medical Center [Nijmegen]
15 USQ - University of Southern Queensland
16 UA - University of Antwerp
17 Istituto Tumori "Giovanni Paolo II" [Bari]
18 University of Iceland [Reykjavik]
19 NKI - Netherlands Cancer Institute
20 Génétique et Biologie du Développement
21 The University of Texas M.D. Anderson Cancer Center [Houston]
22 UiB - University of Bergen
23 Haukeland University Hospital
24 Memorial Sloane Kettering Cancer Center [New York]
25 Fondation Synergie Lyon Cancer [Lyon]
26 ERABLE - Equipe de recherche européenne en algorithmique et biologie formelle et expérimentale
27 Institute for Cancer Research [Oslo]
F. Germán Rodríguez-González
- Fonction : Auteur
- PersonId : 901426
Serena Nik-Zainal
- Fonction : Auteur
- PersonId : 904529
Roberto Salgado
- Fonction : Auteur
- PersonId : 779439
- ORCID : 0000-0002-1110-3801
Steven van Laere
- Fonction : Auteur
- PersonId : 779440
- ORCID : 0000-0003-2465-3252
Christine Desmedt
- Fonction : Auteur
- PersonId : 764697
- ORCID : 0000-0002-5223-5579
Anne Vincent-Salomon
- Fonction : Auteur
- PersonId : 758892
- ORCID : 0000-0001-5754-5771
- IdRef : 129126896
Alain Viari
- Fonction : Auteur
- PersonId : 18170
- IdHAL : alain-viari
- ORCID : 0000-0002-1329-7777
- IdRef : 081478151
Résumé
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
Domaines
Sciences du Vivant [q-bio]
Origine : Fichiers éditeurs autorisés sur une archive ouverte
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