Adam Godzik, Ph.D.

Adam Godzik

Adam Godzik, Ph.D.

Research Assistant Professor(s)

Adam Godzik's Research Focus

Related Diseases > Cancer

Our research is focused on biological systems and their evolution. We try to combine insights from mathematics and physics to answer basic questions about biological systems and to use them to develop new computational tools that could allow us to find new regularities and trends in biological data. In particular we are trying to understand how the topology, structure, and function of proteins and protein networks has evolved and how it reacts to perturbation, such as disease mutations or other genomics perturbations. 

By combining structural information about proteins with data on cellular networks formed by these proteins in an approach we call structural systems biology we can explicitly model the networks in their perturbed state and try to predict their behavior. We study systems from bacterial metabolic and virulence networks, to human immunity, apoptosis and cancer networks.

Adam Godzik's Research Report

Cancer3D Website

Cancer3D is a database that unites information on somatic missense mutations from TCGA and CCLE, allowing users to explore two different cancer-related problems at the same time: drug sensitivity/biomarker identification and prediction of cancer drivers. The database is an interface to two novel algorithms, e-Driver and e-Drug, that make use of information about the internal structure of a protein to predict novel cancer drivers or drug biomarkers respectively. Moreover, it maps somatic missense mutations from over 18,000 human proteins to more than 25,000 protein structures from PDB.

Adam Godzik's Bio

Dr. Adam Godzik earned his Ph.D. in physics from the Department of Physics, University of Warsaw, Poland in 1990. After postdoctoral work in the European Molecular Biology Laboratory in Heidelberg and The Scripps Research Institute in San Diego, he became an Assistant Professor at The Scripps Research Institute. In 1999 he joined Sanford-Burnham Medical Research Institute as an Associate Professor.

bioinformatics

Publications

Porta-Pardo E, Godzik A
Bioinformatics 2014 Nov 1;30(21):3109-14
Serrano P, Dutta SK, Proudfoot A, Mohanty B, Susac L, Martin B, Geralt M, Jaroszewski L, Godzik A, Elsliger M, Wilson IA, Wüthrich K
FEBS J 2016 Nov;283(21):3870-3881
Slabinski L, Jaroszewski L, Rodrigues AP, Rychlewski L, Wilson IA, Lesley SA, Godzik A
Protein Sci 2007 Nov;16(11):2472-82
Porta-Pardo E, Godzik A
Cancer Immunol Res 2016 Sep 2;4(9):789-98
Braten O, Livneh I, Ziv T, Admon A, Kehat I, Caspi LH, Gonen H, Bercovich B, Godzik A, Jahandideh S, Jaroszewski L, Sommer T, Kwon YT, Guharoy M, Tompa P, Ciechanover A
Proc Natl Acad Sci U S A 2016 Aug 9;113(32):E4639-47
Hrabe T, Jaroszewski L, Godzik A
Bioinformatics 2016 Sep 15;32(18):2776-82