Protein potentials and domains : re-use and composability

Protein-protein interactions are one of the cornerstones of biological processes throughout the cell. Unfortunately, lack of available data precludes many possible approaches to modeling these fundamental interactions at scale. This thesis focuses on a specific set of protein domains, known as peptide-binding domains (PBD), that play a particularly crucial role in mediating protein-protein interactions. Using these components as a basis, we develop a model for protein-protein interactions driven by PBDs. Our approach revises a previously proposed model, both expanding its applicability to a much larger set of PBDs and improving the performance of the model. We conclude with an application of our model that shows the flexibility of our approach.

Department dc:contributor.department

Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science.

Grantor dc:publisher

Massachusetts Institute of Technology

Year dc:date.issued

2017

Author dc:creator

• Cunningham, Joseph M., M. Eng. Massachusetts Institute of Technology

Advisor dc:contributor.advisor

• Peter Sorger and Doug Lauffenberger.

• Electrical Engineering and Computer Science.

Statement dc:rights

• MIT theses are protected by copyright. They may be viewed, downloaded, or printed from this source but further reproduction or distribution in any format is prohibited without written permission.

Licence dc:rights.uri

• http://dspace.mit.edu/handle/1721.1/7582

Language dc:language.iso

eng

Handle dc:identifier.uri

http://hdl.handle.net/1721.1/112903

OAI identifier oai:identifier

oai:dspace.mit.edu:1721.1/112903