Qiangfeng Zhang

US Patent:

20130253894, Sep 26, 2013

Filed:

Mar 7, 2013

Appl. No.:

13/789255

Inventors:

Donald Petrey - New York NY, US
Andrea Califano - New York NY, US
Lei Deng - New York NY, US
Qiangfeng Cliff Zhang - New York NY, US

International Classification:

G06F 19/12

US Classification:

703 11

Abstract:

The present subject matter relates to systems and methods for predicting molecular interactions within biological networks based on structural and non-structural indicators. Such molecules include but are not limited to proteins, nucleic acids and small molecules. In some embodiments, the present subject matter is directed to methods for predicting protein-protein interactions comprising obtaining a pair of query proteins, using sequence alignment to identify structural representatives for each of the pair of query proteins, and using structural alignment to determine sets of close and remote structural neighbors for each of the structural representatives. The method can include analyzing the close and remote structural neighbors to identify a reported complex, and using the reported complex to define a template for creating a model for interaction of the pair of query proteins. In another embodiment, the method includes determining sets of non-structural and structural-based scores to measure properties of the modeled interaction and the query proteins.