Abstract: A new method and system can be implemented to identify, analyze and display hierarchies of condition-specific gene, network or pathway activities or aberrations. Methods are also presented related to biomarker and drug-target identification and diagnosing new patients or samples with diseases or disease subtypes. Further, methods are presented related to predicting patient survival or response to treatment. Finally, methods are presented that can provide information of biological agricultural or medical interest. Methods provided herein include methods of making a multidimensional multiscale module map for identifying, analyzing and displaying hierarchies of network or pathway activities, the multidimensional multiscale map, and systems for discussing genomic features of a subject or sample with the multiscale module map.

Abstract: A new method and system can be implemented to identify, analyze and display hierarchies of condition-specific gene, network or pathway activities or aberrations. Methods are also presented related to biomarker and drug-target identification and diagnosing new patients or samples with diseases or disease subtypes. Further, methods are presented related to predicting patient survival or response to treatment. Finally, methods are presented that can provide information of biological agricultural or medical interest. Methods provided herein include methods of making a multidimensional multiscale module map for identifying, analyzing and displaying hierarchies of network or pathway activities, the multidimensional multiscale map, and systems for discussing genomic features of a subject or sample with the multiscale module map.