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PPOPP
2006
ACM
13 years 11 months ago
Performance characterization of molecular dynamics techniques for biomolecular simulations
Large-scale simulations and computational modeling using molecular dynamics (MD) continues to make significant impacts in the field of biology. It is well known that simulations...
Sadaf R. Alam, Jeffrey S. Vetter, Pratul K. Agarwa...
BMCBI
2008
118views more  BMCBI 2008»
13 years 5 months ago
MetWAMer: eukaryotic translation initiation site prediction
Background: Translation initiation site (TIS) identification is an important aspect of the gene annotation process, requisite for the accurate delineation of protein sequences fro...
Michael E. Sparks, Volker Brendel
PPOPP
2009
ACM
14 years 6 months ago
OpenMP to GPGPU: a compiler framework for automatic translation and optimization
GPGPUs have recently emerged as powerful vehicles for generalpurpose high-performance computing. Although a new Compute Unified Device Architecture (CUDA) programming model from N...
Seyong Lee, Seung-Jai Min, Rudolf Eigenmann
PERVASIVE
2010
Springer
13 years 7 months ago
Specification and Verification of Complex Location Events with Panoramic
We present the design and evaluation of Panoramic, a tool that enables end-users to specify and verify an important family of complex location events. Our approach aims to reduce o...
Evan Welbourne, Magdalena Balazinska, Gaetano Borr...
BMCBI
2007
265views more  BMCBI 2007»
13 years 5 months ago
Large scale clustering of protein sequences with FORCE -A layout based heuristic for weighted cluster editing
Background: Detecting groups of functionally related proteins from their amino acid sequence alone has been a long-standing challenge in computational genome research. Several clu...
Tobias Wittkop, Jan Baumbach, Francisco P. Lobo, S...