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  • 2007

    Identification and evaluation of functional modules in gene co-expression networks

    Ruan, J. & Zhang, W., 2007, Systems Biology and Computational Proteomics - Joint RECOMB 2006 Satellite Workshops on Systems Biology and on Computational Proteomics, Revised Selected Papers. Springer Verlag, p. 57-76 20 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 4532 LNBI).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    16 Scopus citations
  • Preliminary results in accelerating profile HMM search on FPGAs

    Jacob, A. C., Lancaster, J. M., Buhler, J. D. & Chamberlain, R. D., 2007, Proceedings - 21st International Parallel and Distributed Processing Symposium, IPDPS 2007; Abstracts and CD-ROM. 4228175. (Proceedings - 21st International Parallel and Distributed Processing Symposium, IPDPS 2007; Abstracts and CD-ROM).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    15 Scopus citations
  • The cancer biomedical informatics grid (caBIG™): Infrastructure and applications for a worldwide research community

    Niland, J. C., Townsend, R. M., Annechiarico, R., Johnson, K., Beck, J. R., Manion, F. J., Robbins, R. J., Chute, C. G., Vogel, L. H., Saltz, J. H., Watson, M. A., Casavant, T. L., Soong, S. J., Bondy, J., Fenstermacher, D. A., Becich, M. J., Casagrande, J. T. & Tuck, D. P., 2007, MEDINFO 2007 - Proceedings of the 12th World Congress on Health (Medical) Informatics: Building Sustainable Health Systems. IOS Press, p. 330-334 5 p. (Studies in Health Technology and Informatics; vol. 129).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    29 Scopus citations
  • 2006

    Accelerator design for protein sequence HMM search

    Maddimsetty, R. P., Buhler, J., Chamberlain, R. D., Franklin, M. A. & Harris, B., 2006, Proceedings of the 20th Annual International Conference on Supercomputing, ICS 2006. p. 288-296 9 p. (Proceedings of the International Conference on Supercomputing).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    33 Scopus citations
  • An efficient hybrid strategy for temporal planning

    Xing, Z., Chen, Y. & Zhang, W., 2006, Integration of AI and OR Techniques in Constraint Programming for Combinatorial Optimization Problems - Third International Conference, CPAIOR 2006, Proceedings. Springer Verlag, p. 273-287 15 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 3990 LNCS).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    2 Scopus citations
  • Data mining methods for modeling gene expression regulation and their applications

    Zhang, W., 2006, Proceedings - Sixth International Conference on Data Mining, ICDM 2006. p. 7 1 p. 4053029. (Proceedings - IEEE International Conference on Data Mining, ICDM).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Discussion

    Muslin, A., Komuro, I., Sugden, P., Rosenthal, N., Katz, A. M., Nemer, M., Leinwand, L., Bristow, M., Olson, E. N., Simpson, P. C., Schneider, M. D., Dorn, G., McKinsey, T., Sadoshima, J. I. & Seidman, J., 2006, Heart Failure: Molecules, Mechanisms and Therapeutic Targets. p. 31-40 10 p. (Novartis Foundation Symposium; vol. 274).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Discussion

    Leinwand, L., Field, L. J., Nemer, M., Dimmeler, S., Seidman, J., Rosenthal, N., Schneider, M. D., Katz, A. M., Izumo, S., Marks, A. R., Dorn, G., Simpson, P. C. & Olson, E. N., 2006, Heart Failure: Molecules, Mechanisms and Therapeutic Targets. p. 208-213 6 p. (Novartis Foundation Symposium; vol. 274).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Discussion

    Olson, E. N., Seidman, J., Marks, A. R., Doevendans, P. A., Katz, A. M., Field, L. J., Muslin, A., Izumo, S., Simpson, P. C., Nemer, M., Dorn, G., Schneider, M. D. & Sadoshima, J. I., 2006, Heart Failure: Molecules, Mechanisms and Therapeutic Targets. p. 189-195 7 p. (Novartis Foundation Symposium; vol. 274).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Discussion

    Marks, A. R., Doevendans, P. A., Muslin, A., Olson, E. N., Nemer, M., Simpson, P. C., Field, L. J., Dorn, G., Seidman, J., McKinsey, T., Rosenthal, N., Dimmeler, S., Bristow, M., Schneider, M. D., Sadoshima, J. I., Shetty, S. S. & Katz, A. M., 2006, Heart Failure: Molecules, Mechanisms and Therapeutic Targets. p. 51-57 7 p. (Novartis Foundation Symposium; vol. 274).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Discussion

    Leinwand, L., Olson, E. N., Rosenthal, N., Muslin, A., McKinsey, T., Schneider, M. D., Dorn, G., Seidman, J., Bristow, M., Sugden, P., Field, L. J., Sadoshima, J. I., Simpson, P. C., Katz, A. M., Nemer, M. & Doevendans, P. A., 2006, Heart Failure: Molecules, Mechanisms and Therapeutic Targets. p. 13-19 7 p. (Novartis Foundation Symposium; vol. 274).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Discussion

    Rosenthal, N., Muslin, A., Sugden, P., Marks, A. R., Izumo, S., Olson, E. N., Katz, A. M., Simpson, P. C., Nemer, M., Doevendans, P. A., Dorn, G., Seidman, J., McKinsey, T., Sadoshima, J. I. & Schneider, M. D., 2006, Heart Failure: Molecules, Mechanisms and Therapeutic Targets. p. 111-117 7 p. (Novartis Foundation Symposium; vol. 274).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Final general discussion

    Olson, E. N., Shetty, S. S., Simpson, P. C., Izumo, S., Rosenthal, N., Nemer, M., Chien, K. R., Schneider, M. D., Katz, A. M., Dorn, G. & McKinsey, T., 2006, Heart Failure: Molecules, Mechanisms and Therapeutic Targets. p. 272-276 5 p. (Novartis Foundation Symposium; vol. 274).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Identification and evaluation of weak community structures in networks

    Ruan, J. & Zhang, W., 2006, Proceedings of the 21st National Conference on Artificial Intelligence and the 18th Innovative Applications of Artificial Intelligence Conference, AAAI-06/IAAI-06. p. 470-475 6 p. (Proceedings of the National Conference on Artificial Intelligence; vol. 1).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    19 Scopus citations
  • Measurement of pelvic osteolytic lesions in follow-up studies after total hip arthroplasty

    Castaneda, B., Tamez-Pena, J. G., Totterman, S., O'Keefe, R. & Looney, R. J., Jun 30 2006, Medical Imaging 2006: Physiology, Function, and Structure from Medical Images. 614323. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 6143 II).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Pathophysiology of abdominal aortic aneurysms: Insights from the elastase-induced model in mice with different genetic backgrounds

    Thompson, R. W., Curci, J. A., Ennis, T. L., Mao, D., Pagano, M. B. & Pham, C. T. N., Nov 2006, The Abdominal Aortic Aneurysm: Genetics, Pathophysiology, and Molecular Biology. Blackwell Publishing Inc., p. 59-73 15 p. (Annals of the New York Academy of Sciences; vol. 1085).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    142 Scopus citations
  • RNA secondary structure prediction via energy density minimization

    Alkan, C., Karakoc, E., Cenk Sahinalp, S., Unrau, P., Alexander Ebhardt, H., Zhang, K. & Buhler, J., 2006, Research in Computational Molecular Biology - 10th Annual International Conference, RECOMB 2006, Proceedings. p. 130-142 13 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 3909 LNBI).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    9 Scopus citations
  • Role of Akt in cardiac growth and metabolism

    Muslin, A. J. & DeBosch, B., Dec 1 2006, Heart Failure: Molecules, Mechanisms and Therapeutic Targets. p. 118-126 9 p. (Novartis Foundation Symposium; vol. 274).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    27 Scopus citations
  • Scalable softcore vector processor for biosequence applications

    Jacob, A. C., Harris, B., Buhler, J., Chamberlain, R. & Cho, Y. H., 2006, Proceedings - 14th Annual IEEE Symposium on Field-Programmable Custom Computing Machines, FCCM 2006. p. 295-296 2 p. 4020927. (Proceedings - 14th Annual IEEE Symposium on Field-Programmable Custom Computing Machines, FCCM 2006).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    4 Scopus citations
  • 2005

    Exploiting coarse-grained parallelism to accelerate protein motif finding with a network processor

    Wun, B., Buhler, J. & Crowley, P., 2005, 14th International Conference on Parallel Architectures and Compilation Techniques, PACT 2005. p. 173-184 12 p. 1515591. (Parallel Architectures and Compilation Techniques - Conference Proceedings, PACT; vol. 2005).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    24 Scopus citations
  • 2004

    A linear search strategy using bounds

    Climer, S. & Zhang, W., 2004, Proceedings of the 14th International Conference on Automated Planning and Scheduling, ICAPS 2004. Zilberstein, S., Koehler, J. & Koenig, S. (eds.). p. 132-141 10 p. (Proceedings of the 14th International Conference on Automated Planning and Scheduling, ICAPS 2004).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    1 Scopus citations
  • An improved integer local search for complex scheduling problems

    Zhang, W. & Zhang, X., 2004, Proceedings of the 14th International Conference on Automated Planning and Scheduling, ICAPS 2004. Zilberstein, S., Koehler, J. & Koenig, S. (eds.). p. 83-91 9 p. (Proceedings of the 14th International Conference on Automated Planning and Scheduling, ICAPS 2004).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • Biosequence similarity search on the Mercury system

    Krishnamurthy, P., Buhler, J., Chamberlain, R., Franklin, M., Gyang, K. & Lancaster, J., 2004, Proceedings - 15th IEEE International Conference on Applications-Specific Systems, Architectures and Processors. p. 365-375 11 p. (Proceedings of the International Conference on Application-Specific Systems, Architectures and Processors).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    29 Scopus citations
  • Identifying microRNAs in plant genomes

    Maher, C., Timmermans, M., Stein, L. & Ware, D., Dec 1 2004, Proceedings - 2004 IEEE Computational Systems Bioinformatics Conference, CSB 2004. p. 718-723 6 p. (Proceedings - 2004 IEEE Computational Systems Bioinformatics Conference, CSB 2004).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    16 Scopus citations
  • Take a walk and cluster genes: A TSP-based approach to optimal rearrangement clustering

    Climer, S. & Zhang, W., 2004, Proceedings, Twenty-First International Conference on Machine Learning, ICML 2004. Greiner, R. & Schuurmans, D. (eds.). p. 169-176 8 p. (Proceedings, Twenty-First International Conference on Machine Learning, ICML 2004).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    19 Scopus citations
  • 2003

    An iterative loop matching approach to the prediction of RNA secondary structures with pseudoknots

    Ruan, J., Stormo, G. D. & Zhang, W., 2003, Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003. Institute of Electrical and Electronics Engineers Inc., p. 519-520 2 p. 1227394. (Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • A probabilistic model for learning concatenative morphology

    Snover, M. G. & Brent, M. R., 2003, Advances in Neural Information Processing Systems 15 - Proceedings of the 2002 Conference, NIPS 2002. Neural information processing systems foundation, (Advances in Neural Information Processing Systems).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    6 Scopus citations
  • 2002

    A Probabilistic Model for Learning Concatenative Morphology

    Snover, M. G. & Brent, M. R., 2002, NIPS 2002: Proceedings of the 15th International Conference on Neural Information Processing Systems. Becker, S., Thrun, S. & Obermayer, K. (eds.). MIT Press Journals, p. 1513-1520 8 p. (NIPS 2002: Proceedings of the 15th International Conference on Neural Information Processing Systems).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • 2001

    Phase transitions and backbones of 3-SAT and maximum 3-SAT

    Zhang, W., 2001, Principles and Practice of Constraint Programming - CP 2001 - 7th International Conference, CP 2001, Proceedings. Walsh, T. (ed.). Springer Verlag, p. 153-167 15 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 2239).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    43 Scopus citations
  • The asymmetric traveling salesman problem: Algorithms, instance generators, and tests

    Cirasella, J., Johnson, D. S., McGeoch, L. A. & Zhang, W., 2001, Algorithm Engineering and Experimentation - 3rd International Workshop, ALENEX 2001, Revised Papers. Buchsbaum, A. L. & Snoeyink, J. (eds.). Springer Verlag, p. 32-59 28 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 2153).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    95 Scopus citations
  • 2000

    Selecting optimum DNA oligos for microarrays

    Li, F. & Stormo, G. D., Jan 1 2000, Proceedings - IEEE International Symposium on Bio-Informatics and Biomedical Engineering, BIBE 2000. Institute of Electrical and Electronics Engineers Inc., p. 200-207 8 p. 889608. (Proceedings - IEEE International Symposium on Bio-Informatics and Biomedical Engineering, BIBE 2000).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    6 Scopus citations
  • Towards large-scale conflict resolution: Initial results

    Jung, H., Tambe, M., Zhang, W. & Shen, W. M., 2000, Proceedings - 4th International Conference on MultiAgent Systems, ICMAS 2000. Institute of Electrical and Electronics Engineers Inc., p. 403-404 2 p. 858496. (Proceedings - 4th International Conference on MultiAgent Systems, ICMAS 2000).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • 1999

    A Phylogenetic Approach to RNA Structure Prediction

    Akmaev, V. R., Kelley, S. T. & Stormo, G. D., 1999, Proceedings of the 7th International Conference on Intelligent Systems for Molecular Biology, ISMB 1999. AAAI press, (Proceedings of the 7th International Conference on Intelligent Systems for Molecular Biology, ISMB 1999).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • 1998

    Towards flexible teamwork in persistent teams

    Tambe, M. & Zhang, W., 1998, Proceedings - International Conference on Multi Agent Systems, ICMAS 1998. Institute of Electrical and Electronics Engineers Inc., p. 277-284 8 p. 699065. (Proceedings - International Conference on Multi Agent Systems, ICMAS 1998).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    18 Scopus citations
  • 1996

    Lexical categorization: Fitting template grammars by incremental mdl optimization

    Brent, M. R. & Cartwright, T. A., 1996, Grammatical Inference: Learning Syntax from Sentences - 3rd International Colloquium, ICGI-1996, Proceedings. de la Higuera, C. & Miclet, L. (eds.). Springer Verlag, p. 84-94 11 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 1147).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • 1993

    Depth-first vs. best-first search: new results

    Zhang, W. & Korf, R. E., 1993, Proceedings of the National Conference on Artificial Intelligence. Publ by AAAI, p. 769-775 7 p. (Proceedings of the National Conference on Artificial Intelligence).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    25 Scopus citations
  • 1992

    Average-case analysis of branch-and-bound with applications: summary of results

    Zhang, W. & Korf, R. E., 1992, Proceedings Tenth National Conference on Artificial Intelligence. Publ by AAAI, p. 545-550 6 p. (Proceedings Tenth National Conference on Artificial Intelligence).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    25 Scopus citations
  • Parallel heap operations on EREW PRAM: Summary of results

    Zhang, W. & Korf, R. E., 1992, Proceedings of the International Conference on Parallel Processing. Publ by IEEE, p. 315-318 4 p. (Proceedings of the International Conference on Parallel Processing).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    4 Scopus citations
  • 1991

    Efficient parallel algorithms for some integer problems

    Zhang, W. & Wen, Z., Apr 1 1991, CSC 1991 - Proceedings of the 19th Annual Conference on Computer Science. Association for Computing Machinery, Inc, p. 11-20 10 p. (CSC 1991 - Proceedings of the 19th Annual Conference on Computer Science).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

  • 1990

    Cigarette smoking and coronary artery disease

    Colditz, G. A., Dec 10 1990, Advances in Experimental Medicine and Biology. Vol. 273. p. 311-326 16 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    1 Scopus citations
  • Parathyroid hormone receptor coupling to phospholipase C is an alternate pathway of signal transduction in the bone and kidney

    Dunlay, R., Civitelli, R., Miyauchi, A., Dobre, C. V., Gupta, A., Goligorsky, M. & Hruska, K., Jan 1 1990, Calcium regulation and bone metabolism. Basic and clinical aspects: proceedings of the 10th International Conference on calcium regulating hormones and bone metabolism. ICS886. Cohn, D. V., Glorieux, F. H., Martin, T. J., Cohn, D. V., Glorieux, F. H. & Martin, T. J. (eds.). Elsevier Science Publishers B.V., p. 24-32 9 p. (Calcium regulation and bone metabolism. Basic and clinical aspects: proceedings of the 10th International Conference on calcium regulating hormones and bone metabolism. ICS886).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    3 Scopus citations
  • Transforming growth factor β synthesis in endochondral ossification

    Rosier, R. N., Gelb, D., Landesberg, R. L., Crabb, I. D., O'Keefe, R. J. & Puzas, J. E., Jan 1 1990, Calcium regulation and bone metabolism. Basic and clinical aspects: proceedings of the 10th International Conference on calcium regulating hormones and bone metabolism. ICS886. Cohn, D. V., Glorieux, F. H., Martin, T. J., Cohn, D. V., Glorieux, F. H. & Martin, T. J. (eds.). Elsevier Science Publishers B.V., p. 291-297 7 p. (Calcium regulation and bone metabolism. Basic and clinical aspects: proceedings of the 10th International Conference on calcium regulating hormones and bone metabolism. ICS886).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    2 Scopus citations
  • 1989

    NSA algorithm and its computational complexity - Preliminary results

    Zhang, W., 1989, IEEE Int Workshop Tools Artif Intell Archit Lang Algorithms. Anon (ed.). Publ by IEEE, p. 442-446 5 p. (IEEE Int Workshop Tools Artif Intell Archit Lang Algorithms).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    1 Scopus citations
  • 1988

    Algorithm for hierarchical robot planning

    Zhang, W. X., Zhang, B. & Zhou, Y. Q., 1988, Proc 1988 Int Conf Syst Man Cybern. Publ by IEEE, p. 909-912 4 p. (Proc 1988 Int Conf Syst Man Cybern).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review