Division of Basic Sciences

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  • 2008

    Using directed information for influence discovery in interconnected dynamical systems

    Rao, A., Hero, A. O., States, D. J. & Engel, J. D., 2008, Advanced Signal Processing Algorithms, Architectures, and Implementations XVIII. 70740P. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 7074).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    2 Scopus citations
  • 2007

    Ab-origin: An improved tool of heavy chain rearrangement analysis for human immunoglobulin

    Wang, X., Wei, W., Zheng, S. Y., Cao, Z. W. & Li, Y., 2007, Computational Science - ICCS 2007 - 7th International Conference, Proceedings. PART 2 ed. Springer Verlag, p. 363-369 7 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 4488 LNCS, no. PART 2).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    1 Scopus citations

  • De novo signaling pathway predictions based on protein-protein interaction, targeted therapy and protein microarray analysis

    Ruths, D., Tseng, J. T., Nakhleh, L. & Ram, P. T., 2007, Systems Biology and Computational Proteomics - Joint RECOMB 2006 Satellite Workshops on Systems Biology and on Computational Proteomics, Revised Selected Papers. Springer Verlag, p. 108-118 11 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 proceeding › Conference contribution

    7 Scopus citations

  • Differential effects of G protein-coupled receptors on hematopoietic progenitor cell growth depend on their signaling capacities

    Xue, X., Cai, Z., Seitz, G., Kanz, L., Weisel, K. C. & Möhle, R., Jun 2007, Hematopoietic Stem Cells VI. Blackwell Publishing Inc., p. 180-189 10 p. (Annals of the New York Academy of Sciences; vol. 1106).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    13 Scopus citations

  • Directed-information based feature-selection for tissue-specific sequences

    Rao, A., Hero, A. O., States, D. J. & Engel, J. D., 2007, 2007 IEEE/SP 14th Workshop on Statistical Signal Processing, SSP 2007, Proceedings. p. 210-214 5 p. 4301249. (IEEE Workshop on Statistical Signal Processing Proceedings).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access

  • Interleaved dual-wavelength multiphoton imaging system for heterologous FRET and versatile fluorescent protein excitation

    Zal, M. A., Nelson, M. & Zal, T., 2007, Multiphoton Microscopy in the Biomedical Sciences VII. 64421Q. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 6442).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    3 Scopus citations

  • Multiple sequence alignment based on profile alignment of intermediate sequences

    Lu, Y. & Sze, S. H., 2007, Research in Computational Molecular Biology - 11th Annual International Conference, RECOMB 2007, Proceedings. Springer Verlag, p. 283-295 13 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 4453 LNBI).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    4 Scopus citations

  • The role of dead-end in germ-cell tumor development

    Zhu, R., Bhattacharya, C. & Matin, A., Dec 2007, Testicular Chromosome Structure and Gene Expression. Blackwell Publishing Inc., p. 181-186 6 p. (Annals of the New York Academy of Sciences; vol. 1120).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    13 Scopus citations
  • 2006

    A new method for gene functional prediction based on homologous expression profile

    Lv, S., Wang, Q., Zhang, G., Wen, F., Wang, Z. & Li, X., 2006, Fuzzy Systems and Knowledge Discovery - Second International Conference, FSKD 2005, Proceedings. Springer Verlag, p. 836-844 9 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 3614 LNAI).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Composite gene module discovery using non-negative independent component analysis

    Gong, T., Xuan, J., Zhu, Y., Li, H., Clarke, R., Hoffman, E. P. & Wang, Y., 2006, 2006 IEEE/NLM Life Science Systems and Applications Workshop, LiSA 2006. 4015835. (2006 IEEE/NLM Life Science Systems and Applications Workshop, LiSA 2006).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    1 Scopus citations

  • Conditional confidence intervals for the true classification error

    Xu, Q., Hua, J., Xiong, Z., Suh, E. & Dougherty, E. R., 2006, 2006 IEEE International Workshop on Genomic Signal Processing and Statstics, GENSIPS 2006. p. 97-98 2 p. 4161795. (2006 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS 2006).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Effect of normalization on microarray-based classification

    Hua, J., Balagurunathan, Y., Chen, Y., Lowey, J., Bittner, M. L., Xiong, Z., Suh, E. & Dougherty, E. R., 2006, 2006 IEEE International Workshop on Genomic Signal Processing and Statstics, GENSIPS 2006. p. 7-8 2 p. 4161750. (2006 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS 2006).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Inference of biologically relevant gene influence networks using the directed information criterion

    Rao, A., Hero, A. O., States, D. J. & Engel, J. D., 2006, 2006 IEEE International Conference on Acoustics, Speech, and Signal Processing - Proceedings. p. II1028-II1031 1660521. (ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings; vol. 2).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    25 Scopus citations

  • Latent variable and nICA modeling of pathway gene module composite

    Gong, T., Zhu, Y., Xuan, J., Li, H., Clarke, R., Hoffman, E. P. & Wang, Y., 2006, 28th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'06. p. 5872-5875 4 p. 4029667. (Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    3 Scopus citations

  • Manifold embedding for understanding mechanisms of transcriptional regulation

    Rao, A., Hero, A. O., States, D. J. & Engel, J. D., 2006, 2006 IEEE International Workshop on Genomic Signal Processing and Statstics, GENSIPS 2006. p. 3-4 2 p. 4161748. (2006 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS 2006).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    2 Scopus citations

  • Mixture principal component analysis for distribution volume parametric imaging in brain PET studies

    Qiu, P., Wang, Z. J. & Liu, K. J. R., 2006, 2006 3rd IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Proceedings. p. 928-931 4 p. 162571. (2006 3rd IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Proceedings; vol. 2006).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    1 Scopus citations

  • Modeling breast cell cycle regulation - Overcoming drug resistance

    Arlt, D., Sahin, Ö., Korf, U., Loebke, C., Beißbarth, T., Hahne, F., Wiemann, S. & Poustka, A., 2006, 28th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'06. p. 40-43 4 p. 4030570. (Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • ModVis: An information visualization tool for gene module discovery

    Molineaux, J., Xuan, J., Gong, T., Zhu, Y., Hoffman, E., Clarke, R. & Wang, Y., 2006, 19th International Conference on Computer Applications in Industry and Engineering, CAINE 2006. p. 24-31 8 p. (19th International Conference on Computer Applications in Industry and Engineering, CAINE 2006).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Segmentation of medical images using a genetic algorithm

    Ghosh, P. & Mitchell, M., 2006, GECCO 2006 - Genetic and Evolutionary Computation Conference. Association for Computing Machinery, p. 1171-1178 8 p. (GECCO 2006 - Genetic and Evolutionary Computation Conference; vol. 2).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    66 Scopus citations
  • 2005

    A parallel algorithm for extracting transcriptional regulatory network motifs

    Tie, W., Touchman, J. W., Weiyi, Z., Suh, E. B. & Guoliang, X., 2005, Proceedings - BIBE 2005: 5th IEEE Symposium on Bioinformatics and Bioengineering. p. 193-200 8 p. 1544466. (Proceedings - BIBE 2005: 5th IEEE Symposium on Bioinformatics and Bioengineering; vol. 2005).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    27 Scopus citations

  • A pivoting algorithm for metabolic networks in the presence of thermodynamic constraints

    Nigam, R. & Liang, S., 2005, Proceedings - 2005 IEEE Computational SystemsBioinformatics Conference, CSB 2005. p. 259-267 9 p. 1498027. (Proceedings - 2005 IEEE Computational Systems Bioinformatics Conference, CSB 2005; vol. 2005).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    4 Scopus citations

  • Fabrication of silica nanochannels via scanned coaxial electrospinning

    Wang, M., Jing, N., Chou, C. K., Hung, M. C. & Kameoka, J., 2005, Micro Total Analysis Systems - Proceedings of MicroTAS 2005 Conference: 9th International Conference on Miniaturized Systems for Chemistry and Life Sciences. Transducer Research Foundation, p. 244-246 3 p. (Micro Total Analysis Systems - Proceedings of MicroTAS 2005 Conference: 9th International Conference on Miniaturized Systems for Chemistry and Life Sciences; vol. 1).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Model-based receptor quantization analysis for PET parametric imaging

    Wang, Z. J., Qiu, P., Liu, K. J. R. & Szabo, Z., 2005, Proceedings of the 2005 27th Annual International Conference of the Engineering in Medicine and Biology Society, IEEE-EMBS 2005. Institute of Electrical and Electronics Engineers Inc., p. 5908-5911 4 p. 1615835. (Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings; vol. 7 VOLS).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    4 Scopus citations

  • Tracking the herd: Resynchronization analysis of cell-cycle gene expression data in saccharomyces cerevisiae

    Qiu, P., Wang, Z. J. & Liu, K. J. R., 2005, Proceedings of the 2005 27th Annual International Conference of the Engineering in Medicine and Biology Society, IEEE-EMBS 2005. p. 4826-4829 4 p. 1615552. (Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings; vol. 7 VOLS).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    3 Scopus citations
  • 2004

    Immuno-targeted gold nanoparticles as in-vivo molecular-specific contrast agents for optical detection of carcinogenesis

    Aaron, J., Collier, T., Mack, V., Richards-Kortum, R., Coghlan, L., Follen, M. & Sokolov, K., 2004, Biomedical Topical Meeting, BIOMED 2004. Optica Publishing Group (formerly OSA), FH18. (Optics InfoBase Conference Papers).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Molecular imaging of carcinogenesis with metal nanoparticles

    Sokolov, K., Aaron, J., Kumar, S., Mack, V., Coghlan, L., Gillenwater, A., Storthz, K. A., Follen, M. & Kortum, R. R., 2004, Frontiers in Optics, FiO-2004. Optica Publishing Group (formerly OSA), FThK2. (Optics InfoBase Conference Papers).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • 2003

    A rule grouping technique for weight-based TCAM coprocessors [packet classification application]

    Che, H., Wang, Y. & Wang, Z., 2003, Proceedings - 11th Symposium on High Performance Interconnects, HOTI 2003. Institute of Electrical and Electronics Engineers Inc., p. 32-37 6 p. 1231474. (Proceedings - 11th Symposium on High Performance Interconnects, HOTI 2003).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    6 Scopus citations
  • 2002

    Adaptive algorithms for spatial adaptive interference rejection

    Rao, A., 2002, 2002 IEEE International Conference on Personal Wireless Communications, ICPWC 2002. Institute of Electrical and Electronics Engineers Inc., p. 326-329 4 p. 1177303. (IEEE International Conference on Personal Wireless Communications; vol. 2002-January).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    1 Scopus citations
  • 2001

    KelpIO: A telescope-ready domain-specific I/O library for irregular block-structured applications

    Broom, B., Fowler, R. & Kennedy, K., 2001, Proceedings - 1st IEEE/ACM International Symposium on Cluster Computing and the Grid, CCGrid 2001. p. 148-155 8 p. 923187. (Proceedings - 1st IEEE/ACM International Symposium on Cluster Computing and the Grid, CCGrid 2001).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    6 Scopus citations
  • 1999

    Providing computational science and engineering expertise for a large biomedical research program

    Martino, R. L., Johnson, C. A., Kempner, K. M., Pohida, T. J., Powell, J. I., Suh, E. B., Trus, B. L. & Yap, T. K., 1999, Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings. IEEE, p. 1226 1 p. (Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings; vol. 2).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • 1998

    In-vivo Fluorescence EEM Collection of Normal and Cancerous Epithelial Tissue in the Hamster Cheek Pouch Model

    Zuluaga, A. F., Utzinger, U., Brookner, C., Weiss, D., Gimenez-Conti, I., Mitchell, M. F., Coghlan, L. & Richards-Kortum, R., 1998, Biomedical Optical Spectroscopy and Diagnostics, BOSD 1998. Optica Publishing Group (formerly OSA), p. 89-91 3 p. (Optics InfoBase Conference Papers).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • 1997

    Parallel algorithms in molecular biology

    Martino, R. L., Yap, T. K. & Suh, E. B., 1997, High-Performance Computing and Networking - International Conference and Exhibition, Proceedings. Hertzberger, B., Sloot, P., Hertzberger, B., Sloot, P., Hertzberger, B., Sloot, P., Hertzberger, B. & Sloot, P. (eds.). Springer Verlag, p. 232-240 9 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 1225).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    4 Scopus citations
  • 1996

    Laser ablation of normal porcine liver with the 805-nm diode laser and a diffuser fiber

    Cromeens, D. M. D. V. M., Tinkey, P. T., Stephens, L. C. & Gray, K. N., 1996, Proceedings of SPIE - The International Society for Optical Engineering. Anderson, R. R. (ed.). p. 162-166 5 p. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 2671).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    2 Scopus citations
  • 1994

    Tumor cell-substrate stabilization mediated by integrins

    Patton, J. T., McIntire, L. V., Menter, D. G. & Nicolson, G. L., 1994, Materials Research Society Symposium Proceedings. Publ by Materials Research Society, p. 147-152 6 p. (Materials Research Society Symposium Proceedings; vol. 331).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    5 Scopus citations
  • 1982

    Data Management for a non-human primate research laboratory

    Ward, B. J., Longenecker, H. E. & Abee, C. R., Apr 1 1982, Proceedings of the 20th Annual Southeast Regional Conference, ACM-SE 1982. Association for Computing Machinery, Inc, p. 59-64 6 p. (Proceedings of the 20th Annual Southeast Regional Conference, ACM-SE 1982).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution