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Structural and Computational Biology and Molecular Biophysics

Houston, Texas

A BCM research lab.
Structural and Computational Biology & Molecular Biophysics
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S. Lennart Johnsson, Ph.D.

S. Lennart Johnsson, Ph.D.Hugh Roy and Lillie Cranz Cullen Distinguished Professor, Computer Science, Mathematics, Electrical and Computer Engineering

University of Houston

Education:

B.S., Electrical Engineering, Ingenjör Tekniska Läroverket Västeras, Sweden (1963)
M.S. ,Engineering Physics, Civilingenjör Chalmers Institute of Technology, Göteborg, Sweden(1969)
Ph.D. Control Engineering, Tekn. Lic.,Chalmers Institute of Technology, Göteborg, Sweden (1971)
Systems Science Department, UCLA, Los Angeles, CA, 1970 - 1971

Research Interests:

Professor Johnsson's research interests are in the areas of computational and data Grids, high-performance scientific computation, parallel algorithms, adaptive, Grid-aware, high-performance software and tools for creation thereof, middleware for Grids and parallel computers, especially communications related middleware, performance modelling, and problem solving environments. Grid-aware software adapts its behavior both with respect to the execution environment in which it is used and the application it serves.

The research is carried out through a number of national collaborative projects. Scientific software for high-performance platforms and computational Grids with a focus on software libraries is developed with support from the Los Alamos Computer Science Institute (LACSI) funded by the Department of Energy under its Accelerated Strategic Computing Initiative. Research in tools and techniques for building adaptive, Grid-aware libraries is an integral part of the Grid Application Development Software
(GrADS) project funded by the National Science Foundation (NSF) under its Next Generation Software initiative. The development of scientific software libraries for computational Grids is also in part supported by the Alliance partnership, one of two NSF funded Partnerships for Advanced Computational Infrastructure. Currently, our effort is focused on developing adaptive FFT software. The Simulation Data Base (SimDB) project aimes at creating a software environment for simulation and analysis of molecular dynamics trajectory data in a Grid environment. It is pursued jointly with the Institute for Molecular Design (IMD) at the University of Houston. This effort is funded in part through the National Partnership for Advanced Computational Infrastructure (NPACI).

Selected Publications:

  • Kurzak J, Mirkovic D, Pettitt BM and Johnsson SL. Automatic generation of FFT for translations of multipole expansions in spherical harmonics. Int J High Perform Comput Appl, 22(2):219-230 (2008). PubMed
  • YC Hu, G Jin, L Johnsson, D Kehagias and N Shalaby. HFPBench: A High Performance Fortran Benchmark Suite. ACM Transaction on Mathematical Software, 26:1 (2000).
  • Michael Feig, Matin Abdullah, Lennart Johnsson and Montgomery Pettitt. Large Scale Data Repository: Design of a Molecular Dynamics Trajectory Database. Future Generation Computer Systems, Elsevier, North-Holland, 16(1):101-110 (1999).
  • YC Hu, S-H Teng, and L Johnsson. High Performance Fortran for Highly Irregular Problems. Proc of the 6th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming, ACM Press: 13-24 (1997).

For more publications, see listing on PubMed.

Contact Information:

Department: Computer Science
Address: 501 PGH Hall
University of Houston
4800 Calhoun
Houston, TX 77204-3010
Phone: 713-743-3371
Fax: 713-743-3376
E-mail: johnsson@cs.uh.edu
Additional Links: University of Houston

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