Visual Analysis Group

Visualization of Complex Biological Systems

The fields of biology, medicine, and bioinformatics are a fruitful area for the application of visualization and visual analysis tools. These fields frequently provide a rich variety of types of data to be correlated, combined, linked, and understood. We have applied our tools and techniques to a number of problems in this application area, which are briefly described below.

PRIMA: Patient Record Intelligent Monitoring and Analysis

PRIMA is a collaboration with the Integrated Medical Records Group at Haifa Research Center. PRIMA is an application to allow improved understanding and analysis of medical records data. In its first implementation, the application is applied to legacy Bone Marrow Transplant data from Hadassah Hospital in Jerusalem, Israel.

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Prototype Protein Viewer

PPV is an application to better understand protein simulations. It combines linked three-dimensional and two-dimensional visualizations of characteristics of the protein.

"Case Study: An Environment for Understanding Protein Simulations Using Game Graphics," D. Gresh, F. Suits, Y. Sham, IEEE Visualization 2001.IEEE-Copyright 2001 by IEEE. Permission to make digital or hard copies of part or all of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit. To copy otherwise, to republish, to post to servers, or to redistribute to lists, requires prior specific permission and/or a fee.

Analysis, Visualization and Reconstruction of Malignant Brain Tumors

This was a project to reconstruct three-dimensional tumor shapes from two-dimensional slices.

Cardiac Simulation and Measurement Data Synthesis

This image shows an application we developed in collaboration with researchers in the Computational Biology Department at Johns Hopkins University. We developed the visualization environment using WEAVE to integrate anatomical information with multidimensional simulation and measurement data.

Functional Genomics: Analyzing Gene Expression Data

We have integrated Diamond with the Genes@Work system for analyzing gene expression data that has been developed at IBM Research's Computational Biology Center to analyze gene expression data derived from DNA microchips.

Analyzing Genetic Sequence Data

We have applied Diamond to the problem of analyzing genetic sequences such as amino acid sequences, and gene sequences.