Paul Brooks

Current Research Projects

  • Optimization-based modeling of bacterial metabolism for biofuel production with Stephen Fong (VCU), Chris Gowen (VCU), Seth Roberts (VCU), Wil Burns (University of Virginia), Umaporn Siangphoe (VCU).
  • Robust orthogonal regression and principal component analysis methods with Jose Dula (VCU), Ed Boone (VCU), Sapan Jot (VCU).
  • Flows in hypergraphs and related problems with Doug Altner (U.S. Naval Academy) and Onur Seref (Virginia Tech).
  • The Vaginal Human Microbiome Project with over 40 other investigators at VCU.
  • Methods for analysis of human microbiome data with over 70 other investigators through the Data Analysis Working Group of the NIH Human Microbiome Project.
  • Network design for telecommunication service and water distribution with Ed Boone (VCU), Rachel Bullene (VCU), and Clive Lipchin (Arava Institute, Israel).
  • Robust support vector machines via integer programming with Eric Hess (VCU).
  • Methods for tuning parameters of optimization software with David Edwards (VCU), Charles Stewart (VCU), Brady Hunsaker (Google, Inc.).
  • Scheduling judges and panel sessions for the Court of Appeals of Virginia.
  • Workforce assessment for the Richmond Police Department with Robyn Diehl (VCU), David Edwards (VCU), Toni Sorrell (VCU), and Sudharshana Srinivasan (VCU).

    Selected Papers

  • Coverings and matchings in r-partite hypergraphs. DS Altner and JP Brooks. Accepted to Networks, June 2011.
  • The Court of Appeals of Virginia uses integer programming and cloud computing to schedule sessions. JP Brooks. Accepted to Interfaces, May 2011.
  • A pure L1-norm principal component analysis. JP Brooks, JH Dula, and EL Boone. Submitted. Available on Optimization Online here. Data sets and code are available here.
  • Support vector machines with the ramp loss and the hard margin loss. JP Brooks. Operations Research, 59:467-479, 2011.
  • Outlier-resistant L1 orthogonal regression via the reformulation-linearization technique. JP Brooks, EL Boone. Advances in Operations Research, 2011, doi:10.1155/2011/263762, available here.
  • Genome-scale metabolic modeling and analysis of clostridium thermocellulm for bioethanol production. SB Roberts, CM Gowen, JP Brooks, and SS Fong. BMC Systems Biology, 4:31, 2010.
  • Analysis of the consistency of a mixed integer programming-based multi-category constrained discriminant model. JP Brooks and EK Lee. Annals of Operations Research, 174:147-168, 2010.
  • Locally linear support vector machines and other local models. V Kecman and JP Brooks. International Joint Conference on Neural Networks, July 2010.
  • Solving a mixed-integer programming formulation of a multi-category constrained discrimination model. JP Brooks and EK Lee. Proceedings of the Artificial Intelligence and Data Mining Workshop, INFORMS Annual Meeting, November 2006.
  • Automated planning volume definition in soft-tissue sarcoma adjuvant brachytherapy. EK Lee, AYC Fung, JP Brooks, and M Zaider. Physics in Medicine and Biology, 47:1891-1910, 2002.

    Funded Research

  • Richmond Police Department, Workforce Assessment and Scheduling, Fall 2010-Summer 2011, $105,000, PI.
  • NASA NNX09AR44A, NRA research opportunities in space and earth sciences 2008, Fall 2009-Fall 2012, $390,000, co-PI, PI: Stephen Fong.
  • NIH-NIAID Award UH3AI08326-01, The vaginal microbiome: disease, genetics, and the environment, Fall 2010-Fall 2013, $6.9 million, co-investigator, PIs: Greg Buck, Cindy Cornelissen, Lindon Eaves, Jerry Strauss.
  • NIH-NIAID Award UH2AI08326-01, The vaginal microbiome: disease, genetics, and the environment, Spring 2009-Spring 2010, $1.2 million, co-investigator, PIs: Greg Buck, Cindy Cornelissen, Lindon Eaves, Jerry Strauss.
  • VCU College of Humanities and Sciences Career Scholarship Enhancement Award, Optimization-based metabolic models for biofuel development, Spring 2008-Summer 2009, $6,237, PI.

    Professional Societies, etc.

    INFORMS - Institute for Operations Research and the Management Sciences
    INFORMS Section on Data Mining
    INFORMS Computing Society
    INFORMS Optimization Society
    Mathematical Optimization Society
    KDnuggets

    Analytics Magazine

    Analytics, a digital magazine published by the Institute for Operations Research and the Management Science (INFORMS), provides readers with real-life examples of how data, modeling and mathematical analysis is used to drive better business decisions and provide concrete competitive advantage.

    Paul Brooks
    Date last modified: June 21, 2011.