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Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision.
Vromman, Marieke; Anckaert, Jasper; Bortoluzzi, Stefania; Buratin, Alessia; Chen, Chia-Ying; Chu, Qinjie; Chuang, Trees-Juen; Dehghannasiri, Roozbeh; Dieterich, Christoph; Dong, Xin; Flicek, Paul; Gaffo, Enrico; Gu, Wanjun; He, Chunjiang; Hoffmann, Steve; Izuogu, Osagie; Jackson, Michael S; Jakobi, Tobias; Lai, Eric C; Nuytens, Justine; Salzman, Julia; Santibanez-Koref, Mauro; Stadler, Peter; Thas, Olivier; Vanden Eynde, Eveline; Verniers, Kimberly; Wen, Guoxia; Westholm, Jakub; Yang, Li; Ye, Chu-Yu; Yigit, Nurten; Yuan, Guo-Hua; Zhang, Jinyang; Zhao, Fangqing; Vandesompele, Jo; Volders, Pieter-Jan.
Afiliación
  • Vromman M; OncoRNALab, Cancer Research Institute Ghent (CRIG), Department of Biomolecular Medicine, Ghent University, Ghent, Belgium.
  • Anckaert J; OncoRNALab, Cancer Research Institute Ghent (CRIG), Department of Biomolecular Medicine, Ghent University, Ghent, Belgium.
  • Bortoluzzi S; Department of Molecular Medicine, University of Padova, Padova, Italy.
  • Buratin A; Department of Molecular Medicine, University of Padova, Padova, Italy.
  • Chen CY; Genomics Research Center, Academia Sinica, Taipei City, Taiwan.
  • Chu Q; Institute of Crop Science and Institute of Bioinformatics, Zhejiang University, Zhejiang, China.
  • Chuang TJ; Genomics Research Center, Academia Sinica, Taipei City, Taiwan.
  • Dehghannasiri R; Department of Biomedical Data Science and of Biochemistry, Stanford University, Stanford, CA, USA.
  • Dieterich C; Klaus Tschira Institute for Integrative Computational Cardiology, Department of Internal Medicine III, University Hospital Heidelberg, German Center for Cardiovascular Research (DZHK), Heidelberg, Germany.
  • Dong X; School of Basic Medical Science, Department of Medical Genetics, Wuhan University, Wuhan, China.
  • Flicek P; EMBL-EBI, Hinxton, UK.
  • Gaffo E; Department of Molecular Medicine, University of Padova, Padova, Italy.
  • Gu W; Collaborative Innovation Center of Jiangsu Province of Cancer Prevention and Treatment of Chinese Medicine, School of Artificial Intelligence and Information Technology, Nanjing University of Chinese Medicine, Nanjing, China.
  • He C; School of Basic Medical Science, Department of Medical Genetics, Wuhan University, Wuhan, China.
  • Hoffmann S; Computational Biology Group, Leibniz Institute on Aging - Fritz Lipmann Institute (FLI), Jena, Germany.
  • Izuogu O; EMBL-EBI, Hinxton, UK.
  • Jackson MS; Biosciences Institute, Faculty of Medical Sciences, Newcastle University, Newcastle, UK.
  • Jakobi T; Translational Cardiovascular Research Center, University of Arizona - College of Medicine Phoenix, Phoenix, AZ, USA.
  • Lai EC; Sloan Kettering Institute, New York, NY, USA.
  • Nuytens J; OncoRNALab, Cancer Research Institute Ghent (CRIG), Department of Biomolecular Medicine, Ghent University, Ghent, Belgium.
  • Salzman J; Department of Biomedical Data Science and of Biochemistry, Stanford University, Stanford, CA, USA.
  • Santibanez-Koref M; Biosciences Institute, Faculty of Medical Sciences, Newcastle University, Newcastle, UK.
  • Stadler P; Bioinformatics Group, Department of Computer Science, and Interdisciplinary Center for Bioinformatics, Universität Leipzig, Leipzig, Germany.
  • Thas O; Data Science Institute, I-Biostat, Hasselt University, Hasselt, Belgium.
  • Vanden Eynde E; OncoRNALab, Cancer Research Institute Ghent (CRIG), Department of Biomolecular Medicine, Ghent University, Ghent, Belgium.
  • Verniers K; OncoRNALab, Cancer Research Institute Ghent (CRIG), Department of Biomolecular Medicine, Ghent University, Ghent, Belgium.
  • Wen G; State Key Laboratory of Bioelectronics, School of Biological Sciences and Medical Engineering, Southeast University, Nanjing, China.
  • Westholm J; Department of Biochemistry and Biophysics, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Stockholm University, Stockholm, Sweden.
  • Yang L; Center for Molecular Medicine, Children's Hospital, Fudan University and Shanghai Key Laboratory of Medical Epigenetics, International Laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Institutes of Biomedical Sciences, Fudan University, Fudan, China.
  • Ye CY; Institute of Crop Science and Institute of Bioinformatics, Zhejiang University, Zhejiang, China.
  • Yigit N; OncoRNALab, Cancer Research Institute Ghent (CRIG), Department of Biomolecular Medicine, Ghent University, Ghent, Belgium.
  • Yuan GH; CAS Key Laboratory of Computational Biology, Shanghai Institute of Nutrition and Health, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai, China.
  • Zhang J; Beijing Institutes of Life Science, Chinese Academy of Sciences, Beijing, China.
  • Zhao F; Beijing Institutes of Life Science, Chinese Academy of Sciences, Beijing, China.
  • Vandesompele J; OncoRNALab, Cancer Research Institute Ghent (CRIG), Department of Biomolecular Medicine, Ghent University, Ghent, Belgium. jo.vandesompele@ugent.be.
  • Volders PJ; OncoRNALab, Cancer Research Institute Ghent (CRIG), Department of Biomolecular Medicine, Ghent University, Ghent, Belgium.
Nat Methods ; 20(8): 1159-1169, 2023 08.
Article en En | MEDLINE | ID: mdl-37443337
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Benchmarking / ARN Circular Tipo de estudio: Diagnostic_studies Límite: Humans Idioma: En Revista: Nat Methods Asunto de la revista: TECNICAS E PROCEDIMENTOS DE LABORATORIO Año: 2023 Tipo del documento: Article País de afiliación: Bélgica
Texto completo
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Benchmarking / ARN Circular Tipo de estudio: Diagnostic_studies Límite: Humans Idioma: En Revista: Nat Methods Asunto de la revista: TECNICAS E PROCEDIMENTOS DE LABORATORIO Año: 2023 Tipo del documento: Article País de afiliación: Bélgica