Data processing: measuring – calibrating – or testing – Measurement system in a specific environment – Biological or biochemical
Reexamination Certificate
2006-04-18
2006-04-18
Moran, Marjorie A. (Department: 1631)
Data processing: measuring, calibrating, or testing
Measurement system in a specific environment
Biological or biochemical
C435S006120, C702S020000, C703S002000
Reexamination Certificate
active
07031845
ABSTRACT:
A method for determining a matrix of expression levels corresponding to a set of biological targets (e.g., genes or gene fragments) and a set of biological samples, including obtaining a matrix of signal values corresponding to the set of biological targets; computing a vector of expression levels for a sample in the set of biological samples using the matrix of signal values; storing the vector of computed expression levels in a storage matrix; repeating the computing and storing steps for each sample in the set of biological samples; and outputting the storage matrix as the matrix of expression levels. The method, based on a linear programming formulation of the problem, works for both “promiscuous” probe array data, in which there may be multiple targets indicated by a single probe, and the “polygamous” case, in which there are multiple probes for a single target. The preferred method can also process data obtained from multiple SAGE analyses using multiple markers. A second embodiment of the method determines optimal expression levels when the available probe data is noisy or uncertain.
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Clark Terry
Dyanov Chris (Hristem)
Kurtz Stuart A.
Quigg Richard
Scott Ridgway
Miller Marina
Moran Marjorie A.
University of Chicago
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