CLUSTERING COPY-NUMBER VALUES FOR SEGMENTS OF GENOMIC DATA
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United States of America Patent
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Issued Date -
Nov 13, 2014
app pub date -
Nov 16, 2012
filing date -
Nov 16, 2011
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Abandoned
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Abstract
Clustering methods are disclosed including a hidden Markov model (HMM) based clustering algorithm having particular applicability for identifying tumor subtypes using array comparative genomic hybridization (aCGH) DNA copy number data. In one embodiment, clusters of tumor samples are modeled with a mixture of HMMs where each HMM fits a cluster of samples. With respect to this embodiment, a computationally efficient and fast clustering algorithm takes only a computational time of O(n), has less than half the error rate of non-negative matrix factorization (NMF) clustering, and can locate the optimal number of groups automatically (e.g., as applied to a data set including glioma aCGH data).
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