Discovering co-operative Transcription Factors (TF's) within the genome is a computationally challenging problem, tackled through Monte Carlo-like analysis by the Co-Bind code, developed at the Department of Genetics of the St. Louis Washington University, Due to its statistical nature, Co-Bind is characterized by very long execution times, order of days on current high-end workstations, and could benefit from parallelization and a wise optimization, performed at both the algorithmic and coding levels. This work presents the results achieved by parallelizing Co-Bind and optimising the parallel code and shows that, on a 16-processor architecture, a speed-up greater than two orders of magnitude is achieved with respect to the serial version released by the code's authors.
|Title of host publication||Proceedings - 19th IEEE International Parallel and Distributed Processing Symposium, IPDPS 2005|
|Publication status||Published - 2005|
|Event||19th IEEE International Parallel and Distributed Processing Symposium, IPDPS 2005 - Denver, CO, United States|
Duration: Apr 4 2005 → Apr 8 2005
|Other||19th IEEE International Parallel and Distributed Processing Symposium, IPDPS 2005|
|Period||4/4/05 → 4/8/05|
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