CGHcall: calling aberrations for array CGH tumor profiles | Zendy

Mark A. van de Wiel | Zendy; Kyung In Kim | Zendy; Sjoerd J. Vosse | Zendy; Wessel N. van Wieringen | Zendy; Saskia M. Wilting | Zendy; Bauke Ylstra | Zendy

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CGHcall: calling aberrations for array CGH tumor profiles

Author(s) -

Mark A. van de Wiel,

Kyung In Kim,

Sjoerd J. Vosse,

Wessel N. van Wieringen,

Saskia M. Wilting,

Bauke Ylstra

Publication year - 2007

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btm030

Subject(s) - computer science , breakpoint , segmentation , set (abstract data type) , data set , algorithm , r package , chromosome , data mining , artificial intelligence , biology , programming language , genetics , gene

CGHcall achieves high calling accuracy for array CGH data by effective use of breakpoint information from segmentation and by inclusion of several biological concepts that are ignored by existing algorithms. The algorithm is validated for simulated and verified real array CGH data. By incorporating more than three classes, CGHcall improves detection of single copy gains and amplifications. Moreover, it allows effective inclusion of chromosome arm information.

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