Convex matrix factorization for gene expression analysis
Author(s)Barnett, John D. (John Derek), 1970-
CMF for gene expression analysis
Massachusetts Institute of Technology. Dept. of Electrical Engineering and Computer Science.
Tommi S. Jaakkola.
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A method is proposed for gene expression analysis relying upon convex matrix factorization (CMF). In CMF, one of the matrix factors has a convexity constraint, that is, each row is nonnegative and sums to one, and hence can be interpreted as a probability distribution. This is motivated biologically by expression data resulting from a mixture of different cell types. This thesis investigates implementing CMF with various constraints applied to the expression matrix, and applies the technique to a problem in analysis of the cell cycle and two problems in cancer classification.
Thesis (S.M.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2004.Includes bibliographical references (p. 68-71).
DepartmentMassachusetts Institute of Technology. Dept. of Electrical Engineering and Computer Science.
Massachusetts Institute of Technology
Electrical Engineering and Computer Science.