Searching for functional gene modules with interaction component models |
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| Authors: | Juuso A Parkkinen Samuel Kaski |
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| Institution: | (1) Helsinki Institute for Information Technology HIIT and Adaptive Informatics Research Centre, Department of Information and Computer Science, Helsinki University of Technology, P.O. Box 5400, FI-02015 TKK, Finland;(2) Department of Computer Science, University of Helsinki, P.O. Box 68, FI-00014, Finland |
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| Abstract: | Background Functional gene modules and protein complexes are being sought from combinations of gene expression and protein-protein interaction
data with various clustering-type methods. Central features missing from most of these methods are handling of uncertainty
in both protein interaction and gene expression measurements, and in particular capability of modeling overlapping clusters.
It would make sense to assume that proteins may play different roles in different functional modules, and the roles are evidenced
in their interactions. |
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