Dr. Carlos P. Sosa

Email: sosa0006@r.umn.edu

Research fields:

Bioinformatics

Drug Discovery

High-Performance Computing

Qualifications

1986 Ph.D., Phys. Chem., Wayne State University, USA

1980 Licentiate, Chem., San Carlos University, Guatemala

Publications (Selected)

1. P. Carrier, B. Long, R. Walsh, J. Dawson, C. P. Sosa, T. Tickle, B. Haas, T. William, “The Impact of High-Performance Computing Best Practice Applied to Next-Generation Sequencing Workflows”, Cray Users Group, May 2015, http://biorxiv.org/content/early/2015/04/07/017665
2. E. Godzaridis, S. Boisvert, F. Xia, M. Kandel, S. Behling, B. Long, C. P. Sosa, F. Laviolette, and J. Corbeil, “Human Analysts at Superhuman Scales: What Has Friendly Software To Do?”, Big Data, 1(4): 227-236(2013). doi:10.1089/big.2013.0031, http://online.liebertpub.com/doi/abs/10.1089/big.2013.0031
3. N. Allsopp, A. Tabary, J. Follows, P. Vezolle, M. Hennecke, H. Reddy, F. Ishibashi, C. Sosa, M. Paolini, S. Prakash, D. Quintero, O. Lascu, “Unfolding IBM eServer Blue Gene Solution”, RedBook, SG24-6686-00, ISBN 0738494070Poughkeepsie, NY, September 20, 2005.
4. Scott Vetter, Ben Gibbs, BalajiAtyam, Frank Berres, Bruno Blanchard, Lancelot Castillo, Pedro Coelho, Nicolas Guerin, Lei Liu, Cesar DinizMaciel, Carlos Sosa, RavikiranThirumalai “Advanced POWER Virtualization on IBM p5 Servers: Architecture and  Performance Considerations”, RedBook, SG24-5768-01, ISBN 0738494070, Austin, Texas, 2005.
5. Gary Lakner, Gary Schulten-Multz, and Carlos P Sosa "IBM System Blue Gene Solution: Applications Development", RedBook, SG24-7179, ISBN 0738489395, Rochester, Minnesota, 2007.
6. Carlos P. Sosa "IBM System Blue Gene Solution: Blue Gene/P Application Development " First Edition, RedBook, SG24-7287, ISBN 0738488674, Rochester, Minnesota, 2008.
7. E. W. Klee and C. P. Sosa, Invited Review Article: “Computational classification of classically secreted proteins”, Drug Discovery Today, 12, 234-239(2007). Supplemental material.
8. OysteinThorsen, Karl Jiang, Amanda Peters, Brian Smith, Heshan Lin, Wu-chun Feng, Carlos P. Sosa, "Parallel Genomic Sequence-Search on a Massively Parallel System", Proceedings of the 4th international conference on Computing frontiers, Ischia, Italy, SESSION: Mapping applications on parallel platforms table of contents, Pages: 59 - 68, 2007, ISBN:978-1-59593-683-7
9. X. Feng, K. W. Cameron, B. Smith, and C. P. Sosa, “Building the Tree of Life on Terascale Systems”, Proceedings of the 21st IEEE  International Parallel and Distributed Processing Symposium (IPDPS 07), March 2007.
10. K. Jiang, O. Thorsen, A. Peters, B. Smith, and C. P. Sosa, "An Efficient Parallel Implementation of the Hidden Markov Methods for Genomic Sequence-Search on a Massively Parallel System", IEEE Transactions in Parallel Distributed Systems, 19, 15-23(2008).
11. C. P. Sosa, "In Silico Classification of Secreted Proteins", Scirus Topic Page, March 2008.
12. H. Lin, P. Balaji, R. Poole, C. Sosa, X. Ma and W. Feng, “Massively Parallel Genomic Sequence Search on the Blue Gene/P Architecture,” IEEE/ACM International Conference for High-Performance Computing, Networking, Storage and Analysis (SC), 2008.
13. M. Kandel, S. Behling, N. Schumann, B. Long, C. P. Sosa, S. Boisvert, J. Corbeil, and L. Pesce, “Genomic Applications on Cray supercomputers: NextGeneration Sequencing Workflow”, 2013 CUG Proceedings, Napa Valley, CA, May 2013.
14. A. Peters, M. Lundberg, T. Lang, C. P. Sosa, "High Throughput Computing Validation for Drug Discovery Using the DOCK Program on a Massively Parallel System", Redpaper 4410, Poughkeepsie, NY, April, 16 2008.
15. T-S. Lee, G. M. Giambasu, C. P. Sosa, M. Martick, W. G. Scott and D. M. York, "Threshold occupancy and specific cation binding modes in the hammerhead ribozyme active site are required for active conformation", J. Mol. Biology, 388, 195-206(2009).
16. G. M. Giambasu, T-S. Lee, C. P. Sosa, M. P. Robertson, W. G. Scott and D. M. York, "Identification of dynamical hinge points of the L1 ligase molecular switch", RNA, 16, 769-780(2010).
17. C. P. Sosa, S. Behling, and D. Barrs, “Single Processor Tunning on the IBM POWER4 processor”, Education: pSeries, April 2004.
18. C. P. Sosa, B. V. Atyam, P. Heyrman, N. Nayar, and J. Hilsabeck, “Life Sciences Applications on IBM POWER5 and AIX 5L Version 5.3: Virtualization Exploitation through Micro-Partitioning Implementation”, IBM Form Number REDP-3966-00, March 2, 2005.
19. C. P. Sosa, B. Atyam, and C. Strauss, “IBM Micro-Partitioning concepts, operations and programming”, pSeries Education, 2005.
20. C. P. Sosa and B. V. Atyam, “Performance Analysis of Simultaneous Multi-Threading on IBM POWER5 eserverpSeries Systems Using Gaussian03”, Proceedings of the Forum 2006 for the Frontier of Computational Science: Present and Future Led by POWER, Kyushu University, Fukuoka, Japan, Aug. 2006, p[1-2].

Profile Details

http://www.msi.umn.edu/~cpsosa//

Last Updated: 2015-7-1