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  4. 中科院合肥智能机械研究所
CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation and visualization

文献类型：期刊论文

作者Xu, Taosheng1; Thuc Duy Le2,3; Liu, Lin2; Su, Ning1; Wang, Rujing1; Sun, Bingyu1; Colaprico, Antonio4,5; Bontempi, Gianluca4,5; Li, Jiuyong2
刊名BIOINFORMATICS
出版日期2017-10-01
卷号33期号:19页码:3131-3133
DOI10.1093/bioinformatics/btx378
文献子类Article
英文摘要Identifying molecular cancer subtypes from multi-omics data is an important step in the personalized medicine. We introduce CancerSubtypes, an R package for identifying cancer subtypes using multi-omics data, including gene expression, miRNA expression and DNA methylation data. CancerSubtypes integrates four main computational methods which are highly cited for cancer subtype identification and provides a standardized framework for data pre-processing, feature selection, and result follow-up analyses, including results computing, biology validation and visualization. The input and output of each step in the framework are packaged in the same data format, making it convenience to compare different methods. The package is useful for inferring cancer subtypes from an input genomic dataset, comparing the predictions from different well-known methods and testing new subtype discovery methods, as shown with different application scenarios in the Supplementary Material.
WOS关键词DISCOVERY
WOS研究方向Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology ; Computer Science ; Mathematical & Computational Biology ; Mathematics
语种英语
WOS记录号WOS:000411514100032
资助机构Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; Australian Research Council(DP140103617) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; NHMRC(1123042) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; National Natural Science Foundation of China(31371340) ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; BridgeIRIS project - INNOVIRIS, Region de Bruxelles Capitale, Brussels, Belgium ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F) ; GENomic profiling of Gastrointestinal Inflammatory-Sensitive CANcers (GENGISCAN), Belgian FNRS PDR(T100914F)
源URL[http://ir.hfcas.ac.cn:8080/handle/334002/33721]  
专题合肥物质科学研究院_中科院合肥智能机械研究所
作者单位1.Chinese Acad Sci, Hefei Inst Phys Sci, Inst Intelligent Machines, Hefei 230031, Anhui, Peoples R China
2.Univ South Australia, Sch Informat Technol & Math Sci, Adelaide, SA 5095, Australia
3.Univ South Australia, Ctr Canc Biol, Adelaide, SA 5000, Australia
4.ULB, Interuniv Inst Bioinformat Brussels IB2, B-1050 Brussels, Belgium
5.ULB, MLG, Dept Informat, B-1050 Brussels, Belgium
推荐引用方式
GB/T 7714		 Xu, Taosheng,Thuc Duy Le,Liu, Lin,et al. CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation and visualization[J]. BIOINFORMATICS,2017,33(19):3131-3133.
APA Xu, Taosheng.,Thuc Duy Le.,Liu, Lin.,Su, Ning.,Wang, Rujing.,...&Li, Jiuyong.(2017).CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation and visualization.BIOINFORMATICS,33(19),3131-3133.
MLA Xu, Taosheng,et al."CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation and visualization".BIOINFORMATICS 33.19(2017):3131-3133.

入库方式： OAI收割

来源：合肥物质科学研究院

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