Biocomputing

Address: Dept. of Biological Sciences, BIOL 414 University of Calgary 2500 University Dr. NW Calgary, Alberta Canada, T2N 1N4 Tel: (403) 220-2264 Fax: (403) 289-9311 Email: jlmaccal[@]ucalgary.ca

Education

• 2002 - Current: PhD Biochemistry - University of Calgary
• 1997 - 2002: BSc Biochemistry - University of Calgary

Research Experience

• May 2002 - Current: Graduate Student - University of Calgary
• 09/01 - 05/03: Research Assistant
• 05/01 - 09/01: Summer Student
• 01/01 - 05/01: Project Student - Computer Simulations of 1-Octanol, Supervisor: Peter Tieleman

Teaching Experience

• Winter 2005: Taught two lectures on free energy calculations in fourth year computer modeling course.
• Fall 2002: Teaching assistant for Biochemistry 541 - Advanced lab techniques in biochemistry. Supervisor: Dr.Ray Turner.

Scholarships and Awards

• 2005-2007: Honorary Izaak Walton Killam Memorial Scholarship
• 2005-2007:NSERC Canada Graduate Scholarship
• March 2004:Awarded computer time through CISS-3.
• 2003 - 2008: Alberta Ingenuity Studentship
• 2003 - 2005: NSERC PGSA Studentship
• 2003 - 2005: Dean's Research Excellence Award
• 2003: Province of Alberta Graduate Studentship
• 2002: My MD application was executed as part of the Canadian Internetworked Scientific Supercomputer project
• 2001 - 2002: Dean's List - Faculty of Science
• 2000 - 2001: Dean's List - Faculty of Science

Affiliations

• Biophysical Society (Student Member)
• International Society for Computational Biology (Student Member)

Conferences

• Biophysical Society Annual Meeting, Long Beach, 2005.
• Biophysical Society Annual Meeting, Baltimore, 2004.
• High Performance Computing Systems and Applications, Sherbrooke, 2003.
• Biophysical Society Annual Meeting, San Antonio, 2003.
• Intelligent Systems for Molecular Biology, Edmonton, 2002.
• Canadian Society for Biochemistry, Molecular, and Cellular Biology Annual Meeting, Banff, 2002.

Skills

• Extensive knowledge of tools for biomolecular simulation and modeling, particularly the GROMACS package
• C and C++ programing
• Extensive experience with Linux system administration:
  • Software management (Redhat Network)
  • Authentication (LDAP with TLS encryption)
  • NFS
  • Backup (BakBone NetVault)
  • Intrusion Detection (DeMarc PureSecure)
  • Disaster Recovery
• Extensive experience setting up and managing a Beowolf-type cluster:
  • NPACI ROCKS
  • OSCAR
  • OpenPBS + Maui
• Familiarity with other programing languages: perl, python