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JISE
2002
165views more  JISE 2002»
13 years 8 months ago
Locality-Preserving Dynamic Load Balancing for Data-Parallel Applications on Distributed-Memory Multiprocessors
Load balancing and data locality are the two most important factors in the performance of parallel programs on distributed-memory multiprocessors. A good balancing scheme should e...
Pangfeng Liu, Jan-Jan Wu, Chih-Hsuae Yang
DAC
2009
ACM
14 years 9 months ago
Multicore parallel min-cost flow algorithm for CAD applications
Computational complexity has been the primary challenge of many VLSI CAD applications. The emerging multicore and manycore microprocessors have the potential to offer scalable perf...
Yinghai Lu, Hai Zhou, Li Shang, Xuan Zeng
BMCBI
2007
134views more  BMCBI 2007»
13 years 8 months ago
Efficient pairwise RNA structure prediction using probabilistic alignment constraints in Dynalign
Background: Joint alignment and secondary structure prediction of two RNA sequences can significantly improve the accuracy of the structural predictions. Methods addressing this p...
Arif Ozgun Harmanci, Gaurav Sharma, David H. Mathe...
BMCBI
2010
87views more  BMCBI 2010»
13 years 8 months ago
Prodigal: prokaryotic gene recognition and translation initiation site identification
Background: The quality of automated gene prediction in microbial organisms has improved steadily over the past decade, but there is still room for improvement. Increasing the num...
Doug Hyatt, Gwo-Liang Chen, Philip F. LoCascio, Mi...
SC
2000
ACM
14 years 25 days ago
Scalable Molecular Dynamics for Large Biomolecular Systems
We present an optimized parallelization scheme for molecular dynamics simulations of large biomolecular systems, implemented in the production-quality molecular dynamics program N...
Robert Brunner, James C. Phillips, Laxmikant V. Ka...