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Systems and methods for modeling and analyzing networks

United States Patent

October 29, 2013
View the Complete Patent at the US Patent & Trademark Office
The systems and methods described herein utilize a probabilistic modeling framework for reverse engineering an ensemble of causal models, from data and then forward simulating the ensemble of models to analyze and predict the behavior of the network. In certain embodiments, the systems and methods described herein include data-driven techniques for developing causal models for biological networks. Causal network models include computational representations of the causal relationships between independent variables such as a compound of interest and dependent variables such as measured DNA alterations, changes in mRNA, protein, and metabolites to phenotypic readouts of efficacy and toxicity.
Hill; Colin C. (Somerville, MA), Church; Bruce W. (Lawrence, MA), McDonagh; Paul D. (Winchester, MA), Khalil; Iya G. (Boston, MA), Neyarapally; Thomas A. (Boston, MA), Pitluk; Zachary W. (New Haven, CT)
Gene Network Sciences, Inc. (Cambridge, MA)
11/ 985,618
November 15, 2007
GOVERNMENT CONTRACT The U.S. Government has a paid-up license in this invention and the right in limited circumstances to require the patent owner to license others on reasonable terms as provided for by the terms of Grant No. DE-FG02-04ER63806 awarded by the Department of Energy.