Srinivas Aluru
Ross Martin Mehl and Marylyne Munas Mehl Professor of Computer Engineering
351 Durham, Ames, IA 50011
Ph: 515-294-3539 / Fax: 515-294-8432
Email: aluru@iastate.edu

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Srinivas Aluru is the Ross Martin Mehl and Marylyne Munas Mehl Professor of Computer Engineering in the Department of Electrical and Computer Engineering at Iowa State University. He leads the Dean's Research Initiative in high- throughput computational biology, a multi-disciplinary and multi-investigator initiative at the interface of high performance computing and computational biology. Aluru is a faculty member in the interdepartmental Bioinformatics and Computational Biology graduate program, which he chaired from 2005 to 2007. From 2006 to 2009, he served as the Richard Stanley Chair in Interdisciplinary Engineering in the College of Engineering.

Aluru conducts research in high performance computing, bioinformatics and systems biology, combinatorial scientific computing, and applied algorithms. He pioneered the development of parallel methods in computational biology, and contributed to the assembly and analysis of complex plant genomes. His group is currently focused on developing bioinformatics methods for high- throughput DNA sequencing, particularly error correction and genome assembly. In systems biology, his group is working on network inference methods using mutual information and Bayesian approaches, and network analysis techniques to further the knowledge of partially characterized pathways. His contributions in scientific computing lie in parallel Fast Multipole Method, domain decomposition methods, spatial data structures, and applications in computational electromagnetics and materials informatics. He published two books and over 120 technical papers in journals and peer-reviewed conferences. He led 25 externally funded projects in the last decade including 16 from the National Science Foundation. He serves on the editorial boards of the IEEE Transactions on Parallel and Distributed Systems, the Journal of Parallel and Distributed Computing, and the International Journal of Data Mining and Bioinformatics.

Aluru is a Fellow of the American Association for the Advancement of Science (AAAS) and the Institute for Electrical and Eloctronic Engineers (IEEE). He is a recipient of the NSF Career award (1997), IBM faculty award (2002), Swarnajayanti fellowship from the Government of India (2007), two best paper awards (IPDPS 2006 and CSB 2005), and two best paper finalist recognitions (SC 2007 and SC 2002). At Iowa State University, he is a recipient of the Award for Outstanding Achievement in Research (2011), the Foundation award for mid-career achievement in research (2006), Young Engineering Faculty Research Award (2002), and the Warren B. Boast Undergraduate Teaching Award (2005). He served on numerous program committees in parallel processing and computational biology, including serving as program chair for HiPC 2007, program co-chair for BiCoB 2008, program vice chair for BIBM 2009, IC3 2009, SC 2008 and 2003, IPDPS 2007, ICPP 2007 and HiPC 2006. He co-chairs an annual workshop in High Performance Computational Biology and edited a comprehensive handbook on computational molecular biology, published in 2006.

Recent Keynotes/Invited/Distinguished talks

• De novo Assembly of Large Genomes from Paired Short Reads, Dept. of Computer Science, Brigham Young University, Provo, Utah, March 4, 2010.
• The new era in computational genomics: Opportunities and challenges for high performance computing, distinguished lecture, Dept. of Computer Science, Texas A&M University, College Station, Texas, February 16, 2010.
• Parallel assembly of large genomes from paired short reads, invited talk at High Performance Computing workshop, Dept. of Energy (DoE) Joint Genome Institute (JGI), January 25, 2010.
• Parallel assembly of large genomes from paired short reads, invited talk at IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Washington D.C., November 2, 2009.
• Parallel assembly of large genomes from paired short reads, School of Technology and Computer Science, Tata Institute of Fundamental Research, October 26, 2009.
• Parallel assembly of genomes from paired short reads, keynote talk at the 8th International Conference on Parallel Processing and Applied Mathematics, Wroclaw, Poland, September 16, 2009.
• Assembling large genomes from paired short reads, invited talk at the 1st International Conference on Bioinformatics and Computational Biology, New Orleans, Louisiana, April 9, 2009.
• Systems biology on a Cell cluster: Constructing gene regulatory networks, invited talk at the Workshop on Supercomputing, Multicore Architectures and Biomedical Informatics at 21st ACM/IEEE Supercomputing Conference (SC), November 17, 2008.
• Consensus genetic maps: A graph theoretic approach, Chalmers Institute of Technology, Goteborg, Sweden, October 16, 2008.
• Systems biology on a cell cluster: Constructing gene regulatory networks, Chalmers Institute of Technology, Goteborg, Sweden, October 13, 2008.
• The combinatorics of sequencing the corn genome, keynote talk at the 1st International Conference on Contemporary Computing (ICCC), New Delhi, India, August 9, 2008.
• The combinatorics of sequencing the corn genome, keynote talk at the 13th Annual Inter- national Computing and Combinatorics Conference (COCOON), Alberta, Canada, July 16, 2007.
• Parallel methods in computational genomics, First Bertinoro Systems Biology Workshop, Bertinoro, Italy, May 2007.

Current Funded Projects

• K. Rajan, S. Aluru (co-PI) and B. Ganapathysubramanian, National Science Foundation, "CDI: Dimensionality-Reduction and Reconstruction Tools for Atom Probe Tomography", Sep 2009 - Aug 2013.
• S. Aluru (PI), B. Ganapathysubramanian and K. Rajan, National Science Foundation, "Parallel Methods for Large, Atomic-scale Quantitative Analysis of Materials", May 2009-May 2012.
• S. Aluru (PI), M. Aluru and D.S. Nettleton, National Science Foundation, "CPA-ACR: Parallel Algorithms and Software for Large Scale Microarray Data Analysis and Gene Network Inference", July 2008 - June 2011.
• S. Aluru (PI), M. Aluru, J. McCalley, K. Rajan, and A. Somani, National Science Foundation, "CRI:IAD Acquisition of a Cluster and High Performance Storage for Dataintensive Applications in Materials Science, Power Systems and Systems Biology", April 2008 - March 2011.
• S. Aluru (PI), National Science Foundation, "Collaborative Research: PACE - Parallel Accelerated Cartesian Expansions with Application to Molecular Dynamics", Sep 2007- Aug 2010.
• A.K. Somani, S. Aluru (co-PI), R. Jernigan, R. Kanwar, J.D. McCalley and D.T. Rover, Department of Education,"GAANN: Training Students for Computing Oriented Interdisciplinary Careers in Research and Education", Aug 2006-Aug 2010.

Program Commitee Memberships

Conference Leadership

• Co-Chair, IEEE International Workshop on High Performance Computational biology (HiCOMB), held in conjunction with IPDPS each year.
• Program Vice-Chair for Cross-Cutting Computational Methods and Bioinformatics Infrastructure, IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Washington D.C., November 2009.
• Program Co-Chair, 1st ISCA International Conference on Bioinformatics and Computational Biology (BiCoB), New Orleans, Louisiana, April 2009.
• Program Vice-Chair for Applications, ACM/IEEE Supercomputing Conference (SC), Austin, Texas, November 2008.
• Tutorials Chair, 1st International Conference on Contemporary Computing (ICCC), New Delhi, India, August 2008.
• Program Chair, 14th IEEE International Conference on High Performance Computing, Goa, India, December 2007.
• Program Vice-Chair for Algorithms and Applications, International Conference on Parallel Processing (ICPP), Si-An, China, August 2007.
• Program Vice-Chair for Applications, IEEE International Parallel and Distributed Processing Symposium (IPDPS), California, April 2007.
• Steering committee member, High Performance Computing Symposium, March 2007.
• Program Vice-Chair for Algorithms, 13th IEEE International Conference on High Performance Computing (HiPC), Bangalore, India, December 2006.