Beagle is a Cray XE6 supercomputer dedicated to biomedical research, funded by the NIH, owned by the University of Chicago Biological Sciences Division, and operated by the Computation Institute. With 24,000 compute cores, 2 petabytes of storage, and a peak speed of 212 teraflops (212 trillion calculations per second), Beagle allows researchers in biology and medicine to dramatically scale up data analysis, modeling, and simulation tasks.

Bloodflow Model

Future petaflop simulations of realistic biological and physical systems will necessarily involve concurrent multiscale modeling. This project addresses the fundamental mathematical, algorithmic and software issues for simulating a human brain vascular model, the first of its kind, consisting of 100 large 3D arteries (Macrovascular Network, MaN), 10 million arterioles (Mesovascular Network,MeN) and one billion capillaries (Microvascular Network, MiN).

SEED logo

With the growing number of available genomes, the need for an environment to support effective comparative analysis increases. The original SEED Project was started in 2003 by the Fellowship for Interpretation of Genomes (FIG) as a largely unfunded open source effort. Argonne National Laboratory and the University of Chicago joined the project, and now much of the activity occurs at those two institutions (as well as the University of Illinois at Urbana-Champaign, Hope college, San Diego State University, the Burnham Institute and a number of other sites).

modENCODE project

The goal of the modENCODE project is to provide the biological research community with a comprehensive encyclopedia of genomic functional elements in the model organisms C. elegans and D. melanogaster. modENCODE is run as a Research Network and the consortium is formed by 11 primary projects, divided between worm and fly, spanning the domains of gene structure, mRNA and ncRNA expression profiling, transcription factor binding sites, histone modifications and replacement, chromatin structure, DNA replication initiation and timing, and copy number variation.


CSGID applies state-of-the-art high-throughput (HTP) structural biology technologies to experimentally characterize the three dimensional atomic structure of targeted proteins from pathogens in the NIAID Category A-C priority lists and organisms causing emerging and re-emerging infectious diseases.

Conte Center logo

The overarching goal of our Center is to identify the genetic and environmental factors that underlie psychiatric disorders, including autism spectrum disorder, schizophrenia, bipolar disorder, depression, anxiety disorders, and child & adolescent psychopathology. Our team develops and applies drastically new mathematical and computational strategies to infer causal relationships among genetic variation, environmental variables and psychiatric phenotypes.