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MPIPairwiseStatSig
2010
Proceedings of the 19th ACM International Symposium on High Performance Distributed Computing - HPDC '10
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it is much time consuming since it involves generating an empirical score distribution by aligning one sequence of the sequence-pair with N random shuffles of the other sequence. ...
Distributing the most compute-intensive portions of the pairwise statistical significance estimation procedure across multiple processors has been shown to result in near-linear speed-ups for the application ...
MPIPairwiseStatSig can also be used in conjunction with a fast database search program like BLAST to recover the homologs missed by BLAST. HPDC'10, June 20-25, 2010, Chicago, Illinois, USA. ...
doi:10.1145/1851476.1851545
dblp:conf/hpdc/AgrawalMHC10
fatcat:rax25xlicnhxfg7azjcfhsqnie
Modeling sequence and function similarity between proteins for protein functional annotation
2010
Proceedings of the 19th ACM International Symposium on High Performance Distributed Computing - HPDC '10
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2010; you can also visit the original URL.
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This assumption is based on the binary concept of homology in that proteins are or not homologous. ...
based on functional rather than homologous groupings. ...
Funding: NIH (5R01 GM076680-02 and UO1 DK072473), NSF (DBI-0544757 and NSF-07140) and Seattle Children's Research Institute internal funds to Eugene Kolker. ...
doi:10.1145/1851476.1851548
pmid:25101328
pmcid:PMC4120521
dblp:conf/hpdc/HigdonLK10
fatcat:d3b5rakolzaovm33k6frwwiirq
Data parallelism in bioinformatics workflows using Hydra
2010
Proceedings of the 19th ACM International Symposium on High Performance Distributed Computing - HPDC '10
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2015; you can also visit the original URL.
The file type is application/pdf.
However, most of current SWfMS still lack on supporting parallel executions in high performance computing (HPC) environments. ...
Experimental results using workflows with BLAST show performance gains with the additional benefits of distributed provenance support. ...
HPDC'10, June 20-25, 2010, Chicago, Illinois, USA. Copyright 2010 ACM 978-1-60558-942-8/10/06 ...$10.00. ...
doi:10.1145/1851476.1851550
dblp:conf/hpdc/CoutinhoOOBLDM10
fatcat:ah7sv7vvqva55ba37izwdofx2u
Cloud computing paradigms for pleasingly parallel biomedical applications
2010
Proceedings of the 19th ACM International Symposium on High Performance Distributed Computing - HPDC '10
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A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2010; you can also visit the original URL.
The file type is application/pdf.
We review and compare each of the frameworks and perform a comparative study among them based on performance, efficiency, cost and the usability. ...
We analyze the variations in cost between the different platform choices (eg: EC2 instance types), highlighting the need to select the appropriate platform based on the nature of the computation. ...
This work was made possible using the compute use grant provided by Amazon Web Service which is titled "Proof of concepts linking FutureGrid users to AWS". ...
doi:10.1145/1851476.1851544
dblp:conf/hpdc/GunarathneWQF10
fatcat:6fzi7lxe45cmdkg3elb2skrrjm
CUDA-based triangulations of convolution molecular surfaces
2010
Proceedings of the 19th ACM International Symposium on High Performance Distributed Computing - HPDC '10
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A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2010; you can also visit the original URL.
The file type is application/pdf.
Fortunately, the massive computational power of the new generation of low-cost GPUs opens up an opportunity window to solve these problems: real-time performance and cheap computing commodities. ...
Our triangulation algorithm for molecular surfaces is based on a multi-threaded, parallel version of the Marching Cubes (MC) algorithm. ...
HPDC' 10 , 10 June 20-25, 2010, Chicago, Illinois, USA. Copyright 2010 ACM 978-1-60558-942-8/10/06 ...$10.00.
Figure 2 : 2 CPU runtime performance.
Figure 3 : 3 GPU runtime performance. ...
doi:10.1145/1851476.1851553
dblp:conf/hpdc/DiasBG10
fatcat:chkrgki3ljgxdjjzozsv5nbkda
BTWorld
2010
Proceedings of the 19th ACM International Symposium on High Performance Distributed Computing - HPDC '10
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2013; you can also visit the original URL.
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Second, by observing the state of these trackers, BTWorld obtains information about the performance, scalability, and reliability of BitTorrent. ...
We demonstrate the viability of our architecture by deploying it in practice, to observe and analyze one week of operation of a large part of the global BitTorrent network-over 10 million swarms and tens ...
'10, June 20-25, 2010, Chicago, Illinois, USA. ...
doi:10.1145/1851476.1851562
dblp:conf/hpdc/WojciechowskiCPI10
fatcat:55fsg636urdnlhrqbsjellf7ne