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- Title
Weighted clustering of called array CGH data.
- Authors
Wessel N. Van Wieringen; Mark A. Van De Wiel; Bauke Ylstra
- Abstract
Array comparative genomic hybridization (aCGH) is a laboratory technique to measure chromosomal copy number changes. A clear biological interpretation of the measurements is obtained by mapping these onto an ordinal scale with categories loss/normal/gain of a copy. The pattern of gains and losses harbors a level of tumor specificity. Here, we present WECCA (weighted clustering of called aCGH data), a method for weighted clustering of samples on the basis of the ordinal aCGH data. Two similarities to be used in the clustering and particularly suited for ordinal data are proposed, which are generalized to deal with weighted observations. In addition, a new form of linkage, especially suited for ordinal data, is introduced. In a simulation study, we show that the proposed cluster method is competitive to clustering using the continuous data. We illustrate WECCA using an application to a breast cancer data set, where WECCA finds a clustering that relates better with survival than the original one.
- Publication
Biostatistics, 2008, Vol 9, Issue 3, p484
- ISSN
1465-4644
- Publication type
Academic Journal
- DOI
10.1093/biostatistics/kxm048