Robust extraction of functional signals from gene set analysis using a generalized threshold free scoring function |
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| Authors: | Petri Törönen Pauli J Ojala Pekka Marttinen Liisa Holm |
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| Institution: | (1) The Holm Group, Biocenter II, Institute of Biotechnology, University of Helsinki, PO Box 56, 00014 Helsinki, Finland;(2) Finnish Red Cross Blood Service Research and Development, Kivihaantie 7, 00310 Helsinki, Finland;(3) Department of Mathematics and Statistics, University of Helsinki, P.O. Box 68, 00014 Helsinki, Finland;(4) Department of Biological and Environmental Sciences, University of Helsinki, P.O. Box 56, 00014 Helsinki, Finland |
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| Abstract: | Background A central task in contemporary biosciences is the identification of biological processes showing response in genome-wide differential
gene expression experiments. Two types of analysis are common. Either, one generates an ordered list based on the differential
expression values of the probed genes and examines the tail areas of the list for over-representation of various functional
classes. Alternatively, one monitors the average differential expression level of genes belonging to a given functional class.
So far these two types of method have not been combined. |
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