Method and System for Non-linear Quantification of Pathway Deregulation for Analysis of Malignancies
AssigneeYeda Research and Development Co. Ltd.
InventorsEytan DOMANY, Michal SHEFFER, Shlomo URBACH, Yotam DRIER
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Abstract
A system and method for non-linear quantification of pathway deregulation in an individual biological sample for analysis of malignancies.
Claims19
A method for non-linear quantification of pathway deregulation in an individual biological sample for analysis of malignancies, comprising calculating deregulation levels of a plurality of pathways for a particular cancer from a plurality of samples related to said cancer;
- generating a pathway-level representation of each of said plurality of samples;
- characterizing tumor behavior according to said pathway-level representation, including said deregulation levels, wherein said biological sample is a single tumor or malignancy and with the proviso that no detailed knowledge of the network or mechanism of the pathway activity is needed;
- and determining a clinically relevant representation of said biological sample according to said characterizing said tumor behavior.
A method for non-linear quantification of pathway deregulation for analysis of a single individual malignancy, comprising selecting a plurality of biological pathways P for a malignancy;
- for each pathway P, identifying dP genes that belong to it;
- determining expression values for each of said dP genes, wherein each sample i of a plurality of samples is represented by a point X, of the expression values of said genes, said plurality of samples comprising malignant and normal tissue samples;
- calculating a Principal Curve of the cloud of points formed by the full sample set of the expression values of said genes, projecting every point onto said Principal Curve, denoting by Yi the projection of Xi onto said curve;
- and determining pathway deregulation according to said Principal Curve.
Dependencies are inferred from the claim text.