Symp Home
Bioinformatics:
Building Bridges

Exhibits

1
Graduate Training in Bioinformatics at the University of Minnesota

Lynda B.M. Ellis
Laboratory Medicine and Pathology

The University of Minnesota Graduate Program in Bioinformatics (http://www.binf.umn.edu/) offers Graduate Minors at the Masters and PhD level and includes 18 faculty members from 12 departments in 5 schools. This fifth annual, two-day, symposium with world-renown speakers, exhibits, a poster session, and a lunch hosted by the Graduate Faculty, is one of its activities. The Bioinformatics Journal Club (BINF 5480) is offered every Fall and Spring. A public, moderated Bioinformatics email list, open to all, now has over 180 subscribers, a searchable message archive, and receives over 30 posts a month. Since the Graduate Program began in 2002, 22 students with 13 different majors have enrolled in the minor; 18 have graduated with it. The Graduate Program's present curriculum, administration, and structure will be presented and plans for development will be outlined.

2
Computational Biology and Proteomics Support from the Supercomputing Institute

Supercomputing Institute User Support Team

The Supercomputing Institute for Digital Simulation and Advanced Computation is an interdisciplinary research program of the University of Minnesota. The Institute has many state-of-the-art high performance supercomputers, various computing platforms, more than 100 biology-related software packages, and a user support team to support bioinformatics, computational genomics, proteomics, and structural biology research as well as database project development.

The Supercomputing Institute has most popular software for bioinformatics (BLAST, GCG, EMBOSS, Ingenuity Pathway Analysis, Phred/Phrap, ...), microarray data analysis (Expressionist, GeneTraffic, GeneSpring, S+ArrayAnalyzer, ...), proteomics (Mascot, Sequest, Pro ID, Pro QUANT, Clinprotool), structural determination and simulation (Explorer, CNS, InsightII, Charmm, ...). Statistic packages such as SAS, R, and SPLUS are available and can be used for bioinformatics data analysis. The newly established Scientific Data Management Laboratory aims to support large-scale data repository and database application development with IBM DB2, Oracle, MySQL, and SQL Server available.

Please contact the Institute's user support staff to discuss your needs, projects, databases, and software requirements. For more information, please check the Institute's computational biology website at http://www.msi.umn.edu/user_support/compgen/

3
Center for Computational Genomics and Bioinformatics

The CCGB Staff

The Center for Computational Genomics & Bioinformatics, a part of the University of Minnesota's Academic Health Center, works with biomedical and biological investigators in two key ways:

  • Providing tools-of-the-trade for bioinformatics teams to develop their processing pipelines, analysis software, and online tools
  • Partnering on professional informatics software development efforts.

Resources focus on large-scale data handling, high-throughput processing & analysis, and data exploration. In addition to standard software suites and development toolkits, clients have access to high-performance compute systems specialized to computational biology and bioinformatics including Unix compute servers, Linux Beowulf clusters, two TimeLogic Decypher servers, and a BioTeam iNquiry server. Information handling is facilitated by high-end Oracle and MySQL servers and large storage integrated with the University Data Management Services' Storage Area Network. Workshops and online information are offered to help bioinformatics teams learn how to use these resources.

CCGB also provides project-oriented software teams for developing information systems, analysis systems, and infrastructure components. Teams provide coordinated system design, software engineering, implementation, and project management using current technologies and bioinformatics community standards.

We welcome your inquiries. Visit us online at http://ccgb.umn.edu and contact us at help@ccgb.umn.edu.

Symp HomeBInf Home Page Author(s): Jeff Lande, Lynda Ellis