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David A. Bader: [Publications] [Author Rank by year] [Co-authors] [Prefers] [Cites] [Cited by]

Publications of Author

  1. David A. Bader, Vipin Sachdeva
    A Cache-Aware Parallel Implementation of the Push-Relabel Network Flow Algorithm and Experimental Evaluation of the Gap Relabeling Heuristic. [Citation Graph (0, 0)][DBLP]
    ISCA PDCS, 2005, pp:41-48 [Conf]
  2. Guojing Cong, David A. Bader
    An Empirical Analysis of Parallel Random Permutation Algorithms ON SMPs. [Citation Graph (0, 0)][DBLP]
    ISCA PDCS, 2005, pp:27-34 [Conf]
  3. David A. Bader, Vipin Sachdeva
    Incorporating life sciences applications in the architectural optimizations of next-generation petaflop-system. [Citation Graph (0, 0)][DBLP]
    CSB Workshops, 2005, pp:83-84 [Conf]
  4. David A. Bader, Bernard M. E. Moret, Peter Sanders
    Algorithm Engineering for Parallel Computation. [Citation Graph (0, 0)][DBLP]
    Experimental Algorithmics, 2000, pp:1-23 [Conf]
  5. Mohammed Javeed Zaki, David A. Bader, Johan Montagnat, Concettina Guerra
    Topic 17: High Performance Bioinformatics. [Citation Graph (0, 0)][DBLP]
    Euro-Par, 2004, pp:988- [Conf]
  6. Guojing Cong, David A. Bader
    Lock-Free Parallel Algorithms: An Experimental Study. [Citation Graph (0, 0)][DBLP]
    HiPC, 2004, pp:516-528 [Conf]
  7. David A. Bader, Kamesh Madduri
    A Parallel State Assignment Algorithm for Finite State Machines. [Citation Graph (0, 0)][DBLP]
    HiPC, 2004, pp:297-308 [Conf]
  8. David A. Bader, Sukanya Sreshta, Nina R. Weisse-Bernstein
    Evaluating Arithmetic Expressions Using Tree Contraction: A Fast and Scalable Parallel Implementation for Symmetric Multiprocessors (SMPs) (Extended Abstract). [Citation Graph (0, 0)][DBLP]
    HiPC, 2002, pp:63-78 [Conf]
  9. David A. Bader, Kamesh Madduri
    Design and Implementation of the HPCS Graph Analysis Benchmark on Symmetric Multiprocessors. [Citation Graph (0, 0)][DBLP]
    HiPC, 2005, pp:465-476 [Conf]
  10. Bernard M. E. Moret, David A. Bader, Tandy Warnow
    High-Performance Algorithm Engineering for Computational Phylogenetics. [Citation Graph (0, 0)][DBLP]
    International Conference on Computational Science (2), 2001, pp:1012-1021 [Conf]
  11. David A. Bader, Guojing Cong, John Feo
    On the Architectural Requirements for Efficient Execution of Graph Algorithms. [Citation Graph (0, 0)][DBLP]
    ICPP, 2005, pp:547-556 [Conf]
  12. David A. Bader, Vaddadi P. Chandu, Mi Yan
    ExactMP: An Efficient Parallel Exact Solver for Phylogenetic Tree Reconstruction Using Maximum Parsimony. [Citation Graph (0, 0)][DBLP]
    ICPP, 2006, pp:65-73 [Conf]
  13. David A. Bader, Kamesh Madduri
    Designing Multithreaded Algorithms for Breadth-First Search and st-connectivity on the Cray MTA-2. [Citation Graph (0, 0)][DBLP]
    ICPP, 2006, pp:523-530 [Conf]
  14. David A. Bader, Kamesh Madduri
    Parallel Algorithms for Evaluating Centrality Indices in Real-world Networks. [Citation Graph (0, 0)][DBLP]
    ICPP, 2006, pp:539-550 [Conf]
  15. Guojing Cong, David A. Bader
    The Euler Tour Technique and Parallel Rooted Spanning Tree. [Citation Graph (0, 0)][DBLP]
    ICPP, 2004, pp:448-457 [Conf]
  16. Mehmet F. Su, Ihab El-Kady, David A. Bader, Shawn-Yu Lin
    A Novel FDTD Application Featuring OpenMP-MPI Hybrid Parallelization. [Citation Graph (0, 0)][DBLP]
    ICPP, 2004, pp:373-379 [Conf]
  17. David A. Bader, Srinivas Aluru
    Workshop Introduction. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2002, pp:- [Conf]
  18. David A. Bader, Guojing Cong
    A Fast, Parallel Spanning Tree Algorithm for Symmetric Multiprocessors. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2004, pp:- [Conf]
  19. David A. Bader, Guojing Cong
    Fast Shared-Memory Algorithms for Computing the Minimum Spanning Forest of Sparse Graphs. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2004, pp:- [Conf]
  20. David A. Bader, Joseph JáJá
    Practical Parallel Algorithms for Dynamic Data Redistribution, Median Finding, and Selection. [Citation Graph (0, 0)][DBLP]
    IPPS, 1996, pp:292-301 [Conf]
  21. David A. Bader, Joseph JáJá, David Harwood, Larry S. Davis
    Parallel Algorithms for Image Enhancement and Segmentation by Region Growing with an Experimental Study. [Citation Graph (0, 0)][DBLP]
    IPPS, 1996, pp:414-423 [Conf]
  22. Guojing Cong, David A. Bader
    An Experimental Study of Parallel Biconnected Components Algorithms on Symmetric Multiprocessors (SMPs). [Citation Graph (0, 0)][DBLP]
    IPDPS, 2005, pp:- [Conf]
  23. Matthew J. Sottile, Vaddadi P. Chandu, David A. Bader
    Performance analysis of parallel programs via message-passing graph traversal. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2006, pp:- [Conf]
  24. David A. Bader, Arthur B. Maccabe, Jason R. Mastaler, John K. McIver III, Patricia A. Kovatch
    Design and Analysis of the Alliance/University of New Mexico Roadrunner Linux SMP SuperCluster. [Citation Graph (0, 0)][DBLP]
    IWCC, 1999, pp:9-18 [Conf]
  25. David A. Bader, Joseph JáJá
    Parallel Algorithms for Image Histogramming and Connected Components with an Experimental Study (Extended Abstract). [Citation Graph (0, 0)][DBLP]
    PPOPP, 1995, pp:123-133 [Conf]
  26. Bernard M. E. Moret, Stacia K. Wyman, David A. Bader, Tandy Warnow, Mi Yan
    A New Implmentation and Detailed Study of Breakpoint Analysis. [Citation Graph (0, 0)][DBLP]
    Pacific Symposium on Biocomputing, 2001, pp:583-594 [Conf]
  27. Srinivas Aluru, David A. Bader, Anantharaman Kalyanaraman
    M11 - High-performance computing methods for computational genomics. [Citation Graph (0, 0)][DBLP]
    SC, 2006, pp:225- [Conf]
  28. David R. Helman, David A. Bader, Joseph JáJá
    Parallel Algorithms for Personalized Communication and Sorting with an Experimental Study (Extended Abstract). [Citation Graph (0, 0)][DBLP]
    SPAA, 1996, pp:211-222 [Conf]
  29. David A. Bader, Bernard M. E. Moret, Mi Yan
    A Linear-Time Algorithm for Computing Inversion Distance between Signed Permutations with an Experimental Study. [Citation Graph (0, 0)][DBLP]
    WADS, 2001, pp:365-376 [Conf]
  30. David A. Bader, Ajith K. Illendula, Bernard M. E. Moret, Nina R. Weisse-Bernstein
    Using PRAM Algorithms on a Uniform-Memory-Access Shared-Memory Architecture. [Citation Graph (0, 0)][DBLP]
    Algorithm Engineering, 2001, pp:129-144 [Conf]
  31. David A. Bader
    High-Performance Algorithm Engineering for Large-Scale Graph Problems and Computational Biology. [Citation Graph (0, 0)][DBLP]
    WEA, 2005, pp:16-21 [Conf]
  32. David A. Bader, Usman Roshan, Alexandros Stamatakis
    Computational Grand Challenges in Assembling the Tree of Life: Problems and Solutions. [Citation Graph (0, 0)][DBLP]
    Advances in Computers, 2006, v:68, n:, pp:128-179 [Journal]
  33. David A. Bader
    Computational biology and high-performance computing. [Citation Graph (0, 0)][DBLP]
    Commun. ACM, 2004, v:47, n:11, pp:34-41 [Journal]
  34. David A. Bader, Srinivas Aluru
    Special Issue: High Performance Computational Biology. [Citation Graph (0, 0)][DBLP]
    Concurrency - Practice and Experience, 2004, v:16, n:9, pp:817-821 [Journal]
  35. David A. Bader, Bernard M. E. Moret, Mi Yan
    A Linear-Time Algorithm for Computing Inversion Distance between Signed Permutations with an Experimental Study. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2001, v:8, n:5, pp:483-491 [Journal]
  36. David A. Bader, David R. Helman, Joseph JáJá
    Practical Parallel Algorithms for Personalized Communication and Integer Sorting. [Citation Graph (0, 0)][DBLP]
    ACM Journal of Experimental Algorithms, 1996, v:1, n:, pp:3- [Journal]
  37. David R. Helman, Joseph JáJá, David A. Bader
    A New Deterministic Parallel Sorting Algorithm with an Experimental Evaluation. [Citation Graph (0, 0)][DBLP]
    ACM Journal of Experimental Algorithms, 1998, v:3, n:, pp:4- [Journal]
  38. David A. Bader
    An improved, randomized algorithm for parallel selection with an experimental study. [Citation Graph (0, 0)][DBLP]
    J. Parallel Distrib. Comput., 2004, v:64, n:9, pp:1051-1059 [Journal]
  39. David A. Bader, Guojing Cong
    A fast, parallel spanning tree algorithm for symmetric multiprocessors (SMPs). [Citation Graph (0, 0)][DBLP]
    J. Parallel Distrib. Comput., 2005, v:65, n:9, pp:994-1006 [Journal]
  40. David A. Bader, Joseph JáJá
    Parallel Algorithms for Image Histogramming and Connected Components with an Experimental Study. [Citation Graph (0, 0)][DBLP]
    J. Parallel Distrib. Comput., 1996, v:35, n:2, pp:173-190 [Journal]
  41. David A. Bader, Joseph JáJá
    SIMPLE: A Methodology for Programming High Performance Algorithms on Clusters of Symmetric Multiprocessors (SMPs). [Citation Graph (0, 0)][DBLP]
    J. Parallel Distrib. Comput., 1999, v:58, n:1, pp:92-108 [Journal]
  42. Srinivas Aluru, David A. Bader
    Guest Editor's Introduction: Special issue on high-performance computational biology. [Citation Graph (0, 0)][DBLP]
    J. Parallel Distrib. Comput., 2003, v:63, n:7-8, pp:671-673 [Journal]
  43. David R. Helman, David A. Bader, Joseph JáJá
    A Randomized Parallel Sorting Algorithm with an Experimental Study. [Citation Graph (0, 0)][DBLP]
    J. Parallel Distrib. Comput., 1998, v:52, n:1, pp:1-23 [Journal]
  44. David A. Bader, Guojing Cong
    Fast shared-memory algorithms for computing the minimum spanning forest of sparse graphs. [Citation Graph (0, 0)][DBLP]
    J. Parallel Distrib. Comput., 2006, v:66, n:11, pp:1366-1378 [Journal]
  45. Guojing Cong, David A. Bader
    Designing irregular parallel algorithms with mutual exclusion and lock-free protocols. [Citation Graph (0, 0)][DBLP]
    J. Parallel Distrib. Comput., 2006, v:66, n:6, pp:854-866 [Journal]
  46. David A. Bader, Joseph JáJá, Rama Chellappa
    Scalable data parallel algorithms for texture synthesis using Gibbs random fields. [Citation Graph (0, 0)][DBLP]
    IEEE Transactions on Image Processing, 1995, v:4, n:10, pp:1456-1460 [Journal]
  47. Bernard M. E. Moret, David A. Bader, Tandy Warnow
    High-Performance Algorithm Engineering for Computational Phylogenetics. [Citation Graph (0, 0)][DBLP]
    The Journal of Supercomputing, 2002, v:22, n:1, pp:99-111 [Journal]
  48. Srinivas Aluru, Nancy M. Amato, David A. Bader
    Editorial: Special Section on High-Performance Computational Biology. [Citation Graph (0, 0)][DBLP]
    IEEE Trans. Parallel Distrib. Syst., 2006, v:17, n:8, pp:737-739 [Journal]
  49. Sagar Dhakal, Majeed M. Hayat, Jorge E. Pezoa, Cundong Yang, David A. Bader
    Dynamic Load Balancing in Distributed Systems in the Presence of Delays: A Regeneration-Theory Approach. [Citation Graph (0, 0)][DBLP]
    IEEE Trans. Parallel Distrib. Syst., 2007, v:18, n:4, pp:485-497 [Journal]
  50. Kamesh Madduri, David A. Bader, Jonathan W. Berry, Joseph R. Crobak
    An Experimental Study of A Parallel Shortest Path Algorithm for Solving Large-Scale Graph Instances. [Citation Graph (0, 0)][DBLP]
    ALENEX, 2007, pp:- [Conf]
  51. David A. Bader, Kamesh Madduri
    A Graph-Theoretic Analysis of the Human Protein-Interaction Network Using Multicore Parallel Algorithms. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2007, pp:1-8 [Conf]
  52. David A. Bader, Varun Kanade, Kamesh Madduri
    SWARM: A Parallel Programming Framework for Multicore Processors. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2007, pp:1-8 [Conf]
  53. Srinivas Aluru, David A. Bader, Anantharaman Kalyanaraman
    Symposium Evening Tutorial: High-performance Computing Methods for Computational Genomics. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2007, pp:13- [Conf]
  54. David A. Bader, Virat Agarwal, Kamesh Madduri
    On the Design and Analysis of Irregular Algorithms on the Cell Processor: A Case Study of List Ranking. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2007, pp:1-10 [Conf]
  55. Joseph R. Crobak, Jonathan W. Berry, Kamesh Madduri, David A. Bader
    Advanced Shortest Paths Algorithms on a Massively-Multithreaded Architecture. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2007, pp:1-8 [Conf]
  56. David A. Bader
    Petascale Computing for Large-Scale Graph Problems. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2007, pp:1- [Conf]
  57. David A. Bader, Viktor K. Prasanna
    DOSA: Design Optimizer for Scientific Applications. [Citation Graph (0, 0)][DBLP]
    IPDPS, 2007, pp:1-6 [Conf]
  58. Guojing Cong, David A. Bader
    Techniques for Designing Efficient Parallel Graph Algorithms for SMPs and Multicore Processors. [Citation Graph (0, 0)][DBLP]
    ISPA, 2007, pp:137-147 [Conf]
  59. David A. Bader, Shiva Kintali, Kamesh Madduri, Milena Mihail
    Approximating Betweenness Centrality. [Citation Graph (0, 0)][DBLP]
    WAW, 2007, pp:124-137 [Conf]
  60. Diana H. P. Low, Bharadwaj Veeravalli, David A. Bader
    On the design of high-performance algorithms for aligning multiple protein sequences on mesh-based multiprocessor architectures. [Citation Graph (0, 0)][DBLP]
    J. Parallel Distrib. Comput., 2007, v:67, n:9, pp:1007-1017 [Journal]

  61. Tutorial A: Design and Analysis of High Performance Clusters. [Citation Graph (, )][DBLP]


  62. FFTC: Fastest Fourier Transform for the IBM Cell Broadband Engine. [Citation Graph (, )][DBLP]


  63. Simulating Individual-Based Models of Epidemics in Hierarchical Networks. [Citation Graph (, )][DBLP]


  64. On the Design of Fast Pseudo-Random Number Generators for the Cell Broadband Engine and an Application to Risk Analysis. [Citation Graph (, )][DBLP]


  65. Optimizing JPEG2000 Still Image Encoding on the Cell Broadband Engine. [Citation Graph (, )][DBLP]


  66. Generalizing k-Betweenness Centrality Using Short Paths and a Parallel Multithreaded Implementation. [Citation Graph (, )][DBLP]


  67. High performance MPEG-2 software decoder on the cell broadband engine. [Citation Graph (, )][DBLP]


  68. DOSA: design optimizer for scientific applications. [Citation Graph (, )][DBLP]


  69. Financial modeling on the cell broadband engine. [Citation Graph (, )][DBLP]


  70. SNAP, Small-world Network Analysis and Partitioning: An open-source parallel graph framework for the exploration of large-scale networks. [Citation Graph (, )][DBLP]


  71. A faster parallel algorithm and efficient multithreaded implementations for evaluating betweenness centrality on massive datasets. [Citation Graph (, )][DBLP]


  72. Compact graph representations and parallel connectivity algorithms for massive dynamic network analysis. [Citation Graph (, )][DBLP]


  73. Understanding the design trade-offs among current multicore systems for numerical computations. [Citation Graph (, )][DBLP]


  74. Petascale Computing for Large-Scale Graph Problems. [Citation Graph (, )][DBLP]


  75. An efficient transactional memory algorithm for computing minimum spanning forest of sparse graphs. [Citation Graph (, )][DBLP]


  76. GTfold: a scalable multicore code for RNA secondary structure prediction. [Citation Graph (, )][DBLP]


  77. Petascale Computing for Large-Scale Graph Problems. [Citation Graph (, )][DBLP]


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