From mpiBLAST

About: Publications

Publications

Papers Posters Presentations


Papers

2010

Coordinating Computation and I/O in Massively Parallel Sequence Search
H. Lin, X. Ma, W. Feng, N. Samatova
IEEE Transactions on Parallel and Distributed Systems,
May 2010.
(14 pages - PDF, 451K)

2008

Massively Parallel Genomic Sequence Search on the Blue Gene/P Architecture
H. Lin, P. Balaji, R. Poole, C. Sosa, X. Ma, W. Feng
IEEE/ACM SC2008: The International Conference on High-Performance Computing, Networking, and Storage,
November 2008.
(11 pages - PDF, 254K)

Semantic-based Distributed I/O with the ParaMEDIC Framework
P. Balaji, W. Feng, H. Lin
ACM/IEEE International Symposium on High-Performance Distributed Computing,
April 2008.
(10 pages - PDF, 303K)

2007

A Maintainable Software Architecture for Fast and Modular Bioinformatics Sequence Search
J. Archuleta, E. Tilevich, W. Feng
IEEE International Conference on Software Maintenance,
October 2007.
(10 pages - PDF, 907K)

A Pluggable Framework for Parallel Pairwise Sequence Search
J. Archuleta, W. Feng, E. Tilevich
International Conference of the IEEE Engineering in Medicine and Biology Society,
August 2007.
(4 pages - PDF, 411K)

Parallel Genomic Sequence-Search on a Massively Parallel System
O. Thorsen, B.Smith, C. Sosa, K. Jiang, H. Lin, A. Peters, W. Feng
ACM International Conference on Computing Frontiers,
May 2007.
(9 pages - PDF, 131K)

2006

Parallel Genomic Sequence-Searching on an Ad-Hoc Grid: Experiences, Lessons Learned, and Implications
M. Gardner, W. Feng, J. Archuleta, H. Lin, X. Ma
IEEE/ACM SC2006: The International Conference on High-Performance Computing, Networking, and Storage,
November 2006.
(14 pages - PDF, 740K)

2005

Efficient Data Access for Parallel BLAST
H. Lin, X. Ma, P.Chandramohan, A. Geist, and N. Samatova
IEEE International Parallel & Distributed Processing Symposium,
April 2005.
(10 pages - PDF, 121K)

2003

Green Destiny + mpiBLAST = Bioinfomagic
W. Feng
10th International Conference on Parallel Computing (ParCo),
September 2003.
(6 pages - PDF, 203K)

The Design, Implementation, and Evaluation of mpiBLAST (Best Paper: Applications Track)
A. Darling, L. Carey, and W. Feng
4th International Conference on Linux Clusters: The HPC Revolution 2003 in conjunction with ClusterWorld Conference & Expo,
June 2003.
(14 pages - PDF, 3.1M)


Posters

The 2007 Microsoft eScience Workshop at RENCI
October 2007
(PNG, 1.8M)

Supercomputing Conference 2002
November 2002
(PDF, 1.2M)

IEEE CSB 2002,
August 2002
(PDF, 30.9M)


Presentations

2007

A Maintainable Software Architecture for Fast and Modular Bioinformatics Sequence Search
J. Archuleta, E. Tilevich, W. Feng
23rd IEEE International Conference on Software Maintenance,
August 2007
(30 Pages - PDF, 5.3M)

A Pluggable Framework for Parallel Pairwise Sequence Search
J. Archuleta, W. Feng, E. Tilevich
29th International Conference of the IEEE Engineering in Medicine and Biology Society,
August 2007
(22 Pages - PDF, 3.9M)

2006

Parallel Genomic Sequence-Searching on an Ad-hoc Grid: Experiences, Lessons Learned, and Implications
M. Gardner, W. Feng, J. Archuleta, H. Lin, X. Ma
IEEE/ACM SC2006: The International Conference on High-Performance Computing, Networking, and Storage,
November 2006.
(27 pages - PDF, 2.5M)

Efficient Data Handling in Comparative Genome Analysis Applications
H. Lin, X. Ma, W. Feng, A. Geist, and N. Samatova
12th SIAM Conference on Parallel Processing for Scientific Computing,
February 2006
(14 Pages - PDF, 1.1M)

Whole Genome, Physics-Based Sequence Alignment for Pathogen Signature Design
J. Gans, W. Feng, and M. Wolinsky
12th SIAM Conference on Parallel Processing for Scientific Computing,
February 2006
(17 Pages - PDF, 4.9M)

2005

mpiBLAST evolves: success, collaborations, and challenges
A. Darling
Bioinformatics Open-Source Conference 2005 (BOSC'2005),
June 2005
(12 Pages - PDF, 912K)

Retrieved from http://www.mpiblast.org/About/Publications
Page last modified on July 14, 2010, at 12:06 AM