2009 | ||
---|---|---|
71 | EE | Benjamin G. Jackson, Patrick S. Schnable, Srinivas Aluru: Assembly of Large Genomes from Paired Short Reads. BICoB 2009: 30-43 |
2008 | ||
70 | EE | Jaroslaw Zola, Maneesha Aluru, Srinivas Aluru: Parallel Information Theory Based Construction of Gene Regulatory Networks. HiPC 2008: 336-349 |
69 | EE | Sudip Seal, Michael Moody, Anna Ceguerra, Simon Ringer, Krishna Rajan, Srinivas Aluru: Tracking Nanostructural Evolution in Alloys: Large-Scale Analysis of Atom Probe Tomography Data on Blue Gene/L. ICPP 2008: 338-345 |
68 | EE | Benjamin G. Jackson, Srinivas Aluru: Parallel Construction of Bidirected String Graphs for Genome Assembly. ICPP 2008: 346-353 |
67 | EE | Andrew Janowczyk, Sharat Chandran, Srinivas Aluru: Fast, Processor-Cardinality Agnostic PRNG with a Tracking Application. ICVGIP 2008: 171-178 |
66 | EE | Abhinav Sarje, Srinivas Aluru: Parallel biological sequence alignments on the Cell Broadband Engine. IPDPS 2008: 1-11 |
65 | EE | Srinivas Aluru: Text Indexing. Encyclopedia of Algorithms 2008 |
64 | EE | Benjamin G. Jackson, Patrick S. Schnable, Srinivas Aluru: Consensus Genetic Maps as Median Orders from Inconsistent Sources. IEEE/ACM Trans. Comput. Biology Bioinform. 5(2): 161-171 (2008) |
63 | EE | David A. Bader, Srinivas Aluru: High-performance computational biology. Parallel Computing 34(11): 613-615 (2008) |
62 | EE | Michael Ott, Jaroslaw Zola, Srinivas Aluru, Andrew D. Johnson, Daniel Janies, Alexandros Stamatakis: Large-scale phylogenetic analysis on current HPC architectures. Scientific Programming 16(2-3): 255-270 (2008) |
2007 | ||
61 | Srinivas Aluru, Manish Parashar, Ramamurthy Badrinath, Viktor K. Prasanna: High Performance Computing - HiPC 2007, 14th International Conference, Goa, India, December 18-21, 2007, Proceedings Springer 2007 | |
60 | EE | Srinivas Aluru: The Combinatorics of Sequencing the Corn Genome. COCOON 2007: 1 |
59 | EE | Srinivas Aluru, David A. Bader, Anantharaman Kalyanaraman: Symposium Evening Tutorial: High-performance Computing Methods for Computational Genomics. IPDPS 2007: 13 |
58 | Jaroslaw Zola, Xiao Yang, Adrian Rospondek, Srinivas Aluru: PARALLEL-TCOFFEE: A parallel multiple sequence aligner. ISCA PDCS 2007: 248-253 | |
57 | Scott J. Emrich, Anantharaman Kalyanaraman, Srinivas Aluru: Massively parallel expressed sequence tag clustering. ISCA PDCS 2007: 254-261 | |
56 | EE | Michael Ott, Jaroslaw Zola, Alexandros Stamatakis, Srinivas Aluru: Large-scale maximum likelihood-based phylogenetic analysis on the IBM BlueGene/L. SC 2007: 4 |
55 | EE | Pang Ko, Srinivas Aluru: Optimal Self-adjusting Trees for Dynamic String Data in Secondary Storage. SPIRE 2007: 184-194 |
54 | EE | Anantharaman Kalyanaraman, Scott J. Emrich, Patrick S. Schnable, Srinivas Aluru: Assembling genomes on large-scale parallel computers. J. Parallel Distrib. Comput. 67(12): 1240-1255 (2007) |
2006 | ||
53 | EE | Pang Ko, Srinivas Aluru: Obtaining Provably Good Performance from Suffix Trees in Secondary Storage. CPM 2006: 72-83 |
52 | EE | Srikanta Tirthapura, Sudip Seal, Srinivas Aluru: A Formal Analysis of Space Filling Curves for Parallel Domain Decomposition. ICPP 2006: 505-512 |
51 | EE | Anantharaman Kalyanaraman, Scott J. Emrich, Patrick S. Schnable, Srinivas Aluru: Assembling genomes on large-scale parallel computers. IPDPS 2006 |
50 | Sudip Seal, Srinivas Aluru: Communication-aware Parallel Domain Decomposition using Space Filling Curves. ISCA PDCS 2006: 159-164 | |
49 | EE | Srinivas Aluru, David A. Bader, Anantharaman Kalyanaraman: M11 - High-performance computing methods for computational genomics. SC 2006: 225 |
48 | EE | Srinivas Aluru, Nancy M. Amato, David A. Bader: Editorial: Special Section on High-Performance Computational Biology. IEEE Trans. Parallel Distrib. Syst. 17(8): 737-739 (2006) |
47 | EE | Anantharaman Kalyanaraman, Srinivas Aluru: Efficient Algorithms and Software for Detection of Full-length Ltr Retrotransposons. J. Bioinformatics and Computational Biology 4(2): 197-216 (2006) |
2005 | ||
46 | EE | Benjamin G. Jackson, Srinivas Aluru, Patrick S. Schnable: Consensus Genetic Maps: A Graph Theoretic Approach. CSB 2005: 35-43 |
45 | EE | Anantharaman Kalyanaraman, Srinivas Aluru: Efficient Algorithms and Software for Detection of Full-Length LTR Retrotransposons. CSB 2005: 56-64 |
44 | Zhenhui Shen, Srinivas Aluru, Srikanta Tirthapura: Indexing for Subscription Covering in Publish-Subscribe Systems. ISCA PDCS 2005: 328-333 | |
43 | EE | Rama Sangireddy, Natsuhiko Futamura, Srinivas Aluru, Arun K. Somani: Scalable, memory efficient, high-speed IP lookup algorithms. IEEE/ACM Trans. Netw. 13(4): 802-812 (2005) |
42 | EE | Sudip Seal, Srikanth Komarina, Srinivas Aluru: An optimal hierarchical clustering algorithm for gene expression data. Inf. Process. Lett. 93(3): 143-147 (2005) |
41 | EE | Pang Ko, Srinivas Aluru: Space efficient linear time construction of suffix arrays. J. Discrete Algorithms 3(2-4): 143-156 (2005) |
40 | EE | Fatih Erdogan Sevilgen, Srinivas Aluru, Natsuhiko Futamura: Parallel algorithms for tree accumulations. J. Parallel Distrib. Comput. 65(1): 85-93 (2005) |
39 | EE | Bhanu Hariharan, Srinivas Aluru: Efficient parallel algorithms and software for compressed octrees with applications to hierarchical methods. Parallel Computing 31(3-4): 311-331 (2005) |
2004 | ||
38 | EE | Pang Ko, Mahesh Narayanan, Anantharaman Kalyanaraman, Srinivas Aluru: Space-Conserving Optimal DNA-Protein Alignment . CSB 2004: 80-88 |
37 | EE | Srinivas Aluru, Fatih Erdogan Sevilgen: Efficient Methods for Database Storage and Retrieval Using Space-Filling Curves. ISCIS 2004: 503-512 |
36 | Meng-Shiou Wu, Ricky A. Kendall, Srinivas Aluru: A tunable collective communication framework on a cluster of SMPS. Parallel and Distributed Computing and Networks 2004: 56-63 | |
35 | EE | Scott J. Emrich, Srinivas Aluru, Yan Fu, Tsui-Jung Wen, Mahesh Narayanan, Ling Guo, Daniel A. Ashlock, Patrick S. Schnable: A strategy for assembling the maize (Zea mays L.) genome. Bioinformatics 20(2): 140-147 (2004) |
34 | EE | David A. Bader, Srinivas Aluru: Special Issue: High Performance Computational Biology. Concurrency - Practice and Experience 16(9): 817-821 (2004) |
33 | EE | Stjepan Rajko, Srinivas Aluru: Space and Time Optimal Parallel Sequence Alignments. IEEE Trans. Parallel Distrib. Syst. 15(12): 1070-1081 (2004) |
2003 | ||
32 | EE | Pang Ko, Srinivas Aluru: Space Efficient Linear Time Construction of Suffix Arrays. CPM 2003: 200-210 |
31 | EE | Stjepan Rajko, Srinivas Aluru: Space and Time Optimal Parallel Sequence Alignments. ICPP 2003: 39-47 |
30 | EE | Srinivas Aluru, Natsuhiko Futamura, Kishan Mehrotra: Parallel biological sequence comparison using prefix computations. J. Parallel Distrib. Comput. 63(3): 264-272 (2003) |
29 | EE | Srinivas Aluru, David A. Bader: Guest Editor's Introduction: Special issue on high-performance computational biology. J. Parallel Distrib. Comput. 63(7-8): 671-673 (2003) |
28 | EE | Natsuhiko Futamura, Srinivas Aluru, Xiaoqiu Huang: Parallel Syntenic Alignments. Parallel Processing Letters 13(4): 689-703 (2003) |
2002 | ||
27 | EE | Meng-Shiou Wu, Srinivas Aluru, Ricky A. Kendall: Mixed Mode Matrix Multiplication. CLUSTER 2002: 195- |
26 | EE | Natsuhiko Futamura, Srinivas Aluru, Xiaoqiu Huang: Parallel Syntenic Alignments. HiPC 2002: 420-430 |
25 | EE | Anantharaman Kalyanaraman, Srinivas Aluru, Suresh C. Kothari: Space and Time Efficient Parallel Algorithms and Software for EST Clustering. ICPP 2002: 331- |
24 | EE | Anantharaman Kalyanaraman, Srinivas Aluru, Suresh C. Kothari: Parallel EST Clustering. IPDPS 2002 |
23 | EE | David A. Bader, Srinivas Aluru: Workshop Introduction. IPDPS 2002 |
22 | EE | Bhanu Hariharan, Srinivas Aluru, Balasubramaniam Shanker: A scalable parallel fast multipole method for analysis of scattering from perfect electrically conducting surfaces. SC 2002: 1-17 |
21 | EE | Natsuhiko Futamura, Srinivas Aluru, Desh Ranjan, Bhanu Hariharan: Efficient Parallel Algorithms for Solvent Accessible Surface Area of Proteins. IEEE Trans. Parallel Distrib. Syst. 13(6): 544-555 (2002) |
2001 | ||
20 | EE | Bhanu Hariharan, Srinivas Aluru: Efficient Parallel Algorithms and Software for Compressed Octrees with Applications to Hierarchical Methods. HiPC 2001: 125-136 |
2000 | ||
19 | EE | Fatih Erdogan Sevilgen, Natsuhiko Futamura, Srinivas Aluru: A Provably Optimal, Distribution-Independent Parallel Fast Multipole Method. IPDPS 2000: 77-84 |
18 | EE | Ibraheem Al-Furaih, Srinivas Aluru, Sanjay Goil, Sanjay Ranka: Parallel Construction of Multidimensional Binary Search Trees. IEEE Trans. Parallel Distrib. Syst. 11(2): 136-148 (2000) |
1999 | ||
17 | EE | Srinivas Aluru, Fatih Erdogan Sevilgen: Dynamic Compressed Hypertoctrees with Application to the N-Body Problem. FSTTCS 1999: 21-33 |
16 | Srinivas Aluru, Desh Ranjan, Natsuhiko Futamura: A Parallel Monte Carlo Algorithm for Protein Accessible Surface Area Computation. HiPC 1999: 339-348 | |
15 | EE | Srinivas Aluru, Natsuhiko Futamura, Kishan Mehrotra: Parallel Biological Sequence Comparison Using Prefix Computations. IPPS/SPDP 1999: 653-659 |
14 | Srinivas Aluru, Songrit Maneewongvatana: A Practical Parallel Algorithm for Line Segment Visibility. PDPTA 1999: 1676-1682 | |
1998 | ||
13 | EE | Srinivas Aluru, John L. Gustafson, Gurpur M. Prabhu, Fatih Erdogan Sevilgen: Distribution-Independent Hierarchical Algorithms for the N-body Problem. The Journal of Supercomputing 12(4): 303-323 (1998) |
1997 | ||
12 | EE | Ibraheem Al-furiah, Srinivas Aluru, Sanjay Goil, Sanjay Ranka: Practical Algorithms for Selection on Coarse-Grained Parallel Computers. IEEE Trans. Parallel Distrib. Syst. 8(8): 813-824 (1997) |
11 | Srinivas Aluru: Lagged Fibonacci Random Number Generators for Distributed Memory Parallel Computers. J. Parallel Distrib. Comput. 45(1): 1-12 (1997) | |
1996 | ||
10 | EE | Ibraheem Al-Furaih, Srinivas Aluru, Sanjay Goil, Sanjay Ranka: Practical Algorithms for Selection on Coarse-Grained Parallel Computers. IPPS 1996: 309-313 |
9 | EE | Srinivas Aluru: Parallel Additive Lagged Fibonacci Random Number Generators. International Conference on Supercomputing 1996: 102-108 |
8 | EE | Ibraheem Al-Furaih, Srinivas Aluru, Sanjay Goil, Sanjay Ranka: Parallel Construction of Multidimensional Binary Search Trees. International Conference on Supercomputing 1996: 205-212 |
7 | Srinivas Aluru, Songrit Maneewongvatana: Practical Paralle1 Algorithm for Constructing Line Arrangements. PDPTA 1996: 125-135 | |
6 | EE | John L. Gustafson, Srinivas Aluru: Massively Parallel Searching for Better Algorithms or How to Do a Cross Product with Five Multiplications. Scientific Programming 5(3): 203-217 (1996) |
1995 | ||
5 | Srinivas Aluru: Properties of Binomial Coefficients and Implications to Parallelizing Lagged Fibonacci Random Number Generators. ICPP (3) 1995: 25-28 | |
1994 | ||
4 | EE | Srinivas Aluru, Gurpur M. Prabhu, John L. Gustafson: Truly distribution-independent algorithms for the N-body problem. SC 1994: 420-428 |
1993 | ||
3 | EE | Srinivas Aluru, John L. Gustafson: A Massively Parallel Optimizer for Expression Evaluation. International Conference on Supercomputing 1993: 97-106 |
2 | Srinivas Aluru, John L. Gustafson: Subtle Issues of SIMD Tree Search. PARCO 1993: 49-56 | |
1992 | ||
1 | Srinivas Aluru, Gurpur M. Prabhu, John L. Gustafson: A random number generator for parallel computers. Parallel Computing 18(8): 839-847 (1992) |