Brent Kirkpatrick

  • Program Years: 2004-2008
  • Academic Institution: University of California, Berkeley
  • Field of Study: Computer Science
  • Academic Advisor: Richard Karp
  • Practicum(s):
    Lawrence Livermore National Laboratory (2005)
  • Degree(s):
    Ph.D. Computer Science, University of California, Berkeley, 2011
    M.S. Computer Science, University of California, Berkeley, 2007
    B.S. Computer Science, Montana State University, 2004

Current Status

  • Status: Security Consultant and Researcher, Intrepid Net Computing
  • Research Area: Computer Science
  • Personal URL: http://www.intrepidnetcomputing.com
  • Contact Information: bbkirk@intrepidnetcomputing.com
  • Publications

    B. Kirkpatrick and K. Kirkpatrick. Optimal space reduction for pedigree hidden Markov models. arXiv:1202.2468, 2011. submitted, 2016.

    A. Bouchard-Côté and B. Kirkpatrick. Bayesian pedigree analysis using measure factorization. NIPS: Neural Information Processing Systems 25, 2012.

    K. Stephens and B. Kirkpatrick. Efficiently Solvable Perfect Phylogeny Problems on Binary and k-State Data with Missing Values. 11th Workshop on Algorithms in Bioinformatics (WABI), 2011.

    B. Kirkpatrick, S.C. Li, R. M. Karp, and E. Halperin. Pedigree reconstruction using identity by descent. Proceedings of the Int. Conf. on Research in Comput. Molecular Biology (RECOMB), 2011.

    B. Kirkpatrick. Haplotypes versus Genotypes on Pedigrees. Alg. for Mol. Bio., 2011.

    B. Kirkpatrick. Haplotypes versus Genotypes on Pedigrees. 10th Workshop on Algorithms in Bioinformatics (WABI), 2010.

    B. Kirkpatrick, E. Halperin, and R.M. Karp. Haplotype Inference in Complex Pedigrees. J. of Comp. Bio, 17(3): 269-280, 2010.

    B. Kirkpatrick, J. Rosa, E. Halperin, and R.M. Karp. Haplotype Inference in Complex Pedigrees. Int. Conf. Comput. Molecular Biology (RECOMB), 2009.

    B. Kirkpatrick, C. Santos-Armendariz, R. M. Karp, and E. Halperin. HaploPool: Improving Haplotype Frequency Estimation through DNA Pools and Phylogenetic Modeling. Bioinformatics. 23: 3048-3055. 2007.

    A. Zemla, B. Geisbrecht, J. Smith, M. Lam, B. Kirkpatrick, M. Wagner, T. Slezak, C. Zhou. STRALCP - Structure Alignment-based Clustering of Proteins. Nucleic Acids Research, 2007.

    X. Tang, B. Kirkpatrick, S. Thomas, G. Song, and N. Amato. Using motion planning to study RNA folding kinetics. Int. Conf. Comput. Molecular Biology (RECOMB), pp. 252-261, 2004.

    B. M. Mumey, B. W. Bailey, B. Kirkpatrick, A. J. Jesaitis, T. Angel, and E. A. Dratz. A new method for mapping discontinuous antibody epitopes to reveal structural features of proteins. J. of Computational Biology, 10(3-4):555-567, 2003.

    Awards

    Fernbach Fewlloship at LLNL (declined), 2012.

    Google Anita Borg Scholarship, 2011.

    NSF Graduate Research Fellowship, 2005-2010.

    DOE Compuatational Science Graduate Fellowship, 2004-2008.

    Barry M. Goldwater Scholarship, 2003-2004.

    Computing Research Association Distributed Mentor Project, 2002-2003.

    National Partnership for Advanced Computing Infrastructure-Research Experience for Undergraduates, 2001.

    Montana Space Grant Consortium Scholarship, 2001-2003.

    Micron Scholarship, 2002-2004.

    Honorable Mention for Phi Kappa Phi Outstanding Junior Award, 2003.

    Montana State University Award for Excellence, 2004.

    Undergraduate Scholars Program Research Scholarship, 2001-2003.