university of tulsa logo

Brett McKinney, PhD

Brett McKinney, PhD
Associate Professor of Computer Science and William K. Warren, Jr., Associate Professor of Bioinformatics
College of Engineering & Natural Sciences
Computer Science
918-631-3444 Website Rayzor Hall Room 2145

Education

PhD – University of Oklahoma MS – University of Oklahoma BS – The University of Tulsa

Bio

Brett McKinney has a joint appointment in the Department of Mathematics and Tandy School of Computer Science. He is a native Tulsan who did his undergraduate work summa cum laude at The University of Tulsa in mathematics and physics. He did his graduate work at the University of Oklahoma, obtaining a Ph.D. in theoretical physics, followed by a postdoctoral fellowship in biomathematics and computational biology at the Vanderbilt University Medical Center. He was an assistant professor in the Department of Genetics at the University of Alabama Birmingham School of Medicine before joining TU in 2009.

Research Interests

Bioinformatics
Statistical Genetics
Mathematical Biology
Mathematical Physics

Teaching Interests

Scientific Computing
Machine Learning
Bioinformatics
Network Theory

Publications

Journal Articles

  • Parvandeh, S., and B. McKinney. EpistasisRank and EpistasisKatz: Interaction Network Centrality Methods That Integrate Prior Knowledge Networks. Bioinformatics, 2018.
  • Le, T., Z. Osman, D. Watson, M. Dunn, and B. McKinney. Generalization of the Fermi Pseudopotential. arXiv preprint arXiv:1806.05726, 2018.
  • Le, T., R. Urbanowicz, J. Moore, and B. McKinney. Statistical Inference Relief (STIR) Feature Selection. BioRxiv, 2018, p. 359224.
  • Arabnejad, M., B. Dawkins, W. Bush, B. White, A. Harkness, and B. McKinney. Transition-Transversion Encoding and Genetic Relationship Metric in ReliefF Feature Selection Improves Pathway Enrichment in GWAS. Vol. 11, BioData mining, 2018, p. 23.
  • Altered Populations of Natural Killer Cells, Cytotoxic T Lymphocytes, and Regulatory T Cells in Major Depressive Disorder: Association With Sleep Disturbance. Brain, behavior, and immunity, 2017.
  • Privacy Preserving Evaporative Cooling Feature Selection and Classification With Relief-F and Random Forests. Bioinformatics (Oxford, England), 2017.
  • Lareau, C., B. White, A. Oberg, R. Kennedy, G. Poland, and B. McKinney. An Interaction Quantitative Trait Loci Tool Implicates Epistatic Functional Variants in an Apoptosis Pathway in Smallpox Vaccine EQTL Data. Vol. 17, Genes and immunity, 2016, p. 244.
  • Rahmani, B., M. Zimmermann, D. Grill, R. Kennedy, A. Oberg, B. White, G. Poland, and B. McKinney. Recursive Indirect-Paths Modularity (RIP-M) for Detecting Community Structure in RNA-Seq Co-Expression Networks. Vol. 7, Frontiers in genetics, 2016, p. 80.
  • McKinney, B., C. Lareau, A. Oberg, R. Kennedy, I. Ovsyannikova, and G. Poland. The Integration of Epistasis Network and Functional Interactions in a GWAS Implicates RXR Pathway Genes in the Immune Response to Smallpox Vaccine. Vol. 11, PloS one, 2016, p. e0158016.
  • Lareau, C. et al. “Differential Co-Expression Network Centrality and Machine Learning Feature Selection for Identifying Susceptibility Hubs in Networks with Scale-Free Structure.” BioData mining 8 (2015): 5. Print.

  • Oberg, A.L. et al. “Lessons Learned in the Analysis of High-Dimensional Data in Vaccinomics.” Vaccine S0264-410X.15 (2015): 00574–5. Print.

  • Lareau, C., B. White, C. Montgomery, and B. McKinney. DcVar: A Method for Identifying Common Variants That Modulate Differential Correlation Structures in Gene Expression Data. Vol. 6, Frontiers in genetics, 2015, p. 312.
  • Lareau, C., B. White, A. Oberg, and B. McKinney. Differential Co-Expression Network Centrality and Machine Learning Feature Selection for Identifying Susceptibility Hubs in Networks With Scale-Free Structure. Vol. 8, BioData mining, 2015, p. 5.
  • Oberg, A., B. McKinney, D. Schaid, V. Pankratz, R. Kennedy, and G. Poland. Lessons Learned in the Analysis of High-Dimensional Data in Vaccinomics. Vol. 33, Vaccine, 2015, p. 5262-70.
  • Briney, J. et al. “Tissue-Specific Expressed Antibody Variable Gene Repertoires.” PLoS ONE (2014): n. pag. Print.

  • Briney, B., J. Willis, J. Finn, B. McKinney, and J. Crowe, Jr. Tissue-Specific Expressed Antibody Variable Gene Repertoires. Vol. 9, PLoS One, 2014, p. e100839.
  • Davis, N. et al. “Encore: Genetic Association Interaction Network Centrality Pipeline and Application to SLE Exome Data.” Genetic Epidemiology (2013): n. pag. Print.

  • McKinney, Brett et al. “ReliefSeq: A Gene-Wise Adaptive-k Nearest-Neighbor Feature Selection Tool for Finding Gene-Gene Interactions and Main Effects in MRNA-Seq Gene Expression Data.” PLoS ONE 8.12 (2013): e81527. Print.

  • Poland, G., R. Kennedy, B. McKinney, I. Ovsyannikova, N. Lambert, R. Jacobson, and A. Oberg. Vaccinomics, Adversomics, and the Immune Response Network Theory: Individualized Vaccinology in the 21st Century. Seminars in Immunology, 2013.
  • Davis, N., C. Lareau, B. White, A. Pandey, G. Wiley, C. Montgomery, P. Gaffney, and B. McKinney. Encore: Genetic Association Interaction Network Centrality Pipeline and Application to SLE Exome Data. Vol. 37, Genetic epidemiology, 2013, p. 614-21.
  • McKinney, B., B. White, D. Grill, P. Li, R. Kennedy, G. Poland, and A. Oberg. ReliefSeq: A Gene-Wise Adaptive-K Nearest-Neighbor Feature Selection Tool for Finding Gene-Gene Interactions and Main Effects in MRNA-Seq Gene Expression Data. Vol. 8, PloS one, 2013, p. e81527.
  • Epistasis Network Centrality Analysis Yields Pathway Replication across Two GWAS Cohorts for Bipolar Disorder. Vol. 2, Translational Psychiatry, 2012, p. e154.
  • Crooke, P., J. Hotchkiss, Y. Lenbury, and B. McKinney. Mathematical Modeling of Patient Care. Computational and Mathematical Methods in Medicine, 2012, p. 2.
  • Louie, R., J. Guo, J. Rodgers, R. White, N. Shah, S. Pagant, P. Kim, M. Livstone, K. Dolinski, B. McKinney, J. Hong, E. Sorscher, J. Bryan, E. Miller, and Hartman, 4thJ. A Yeast Phenomic Model for the Gene Interaction Network Modulating CFTR-DeltaF508 Protein Biogenesis. Vol. 4, Genome Med., 2012, p. 103.
  • Inflammation and Neurological Disease-Related Genes Are Differentially Expressed in Depressed Patients With Mood Disorders and Correlate With Morphometric and Functional Imaging Abnormalities. Vol. S0889-1591, Brain Behav. Immun., 2012, pp. 00469-2.
  • Pajewski, N., S. Shrestha, C. Quinn, S. Parker, H. Wiener, B. Aissani, B. McKinney, G. Poland, J. Edberg, R. Kimberly, J. Tang, and R. Kaslow. A Genome-Wide Association Study of Host Genetic Determinants of the Antibody Response to Anthrax Vaccine Adsorbed. Vol. 30, Vaccine, 2012, pp. 4778–84.
  • Briney, B., J. Willis, B. McKinney, and J. Crowe, Jr. High-Throughput Antibody Sequencing Reveals Genetic Evidence of Global Regulation of the naïve and Memory Repertoires That Extends across Individuals. Genes and Immunity (Nature Publishing), 2012.
  • McKinney, B., and N. Pajewski. Six Degrees of Epistasis: Statistical Network Models of GWAS. Vol. 2, Frontiers in Statistical Genetics and Methodology, 2012.
  • Pajewski, N., S. Shrestha, C. Quinn, S. Parker, H. Wiener, B. Aissani, B. McKinney, G. Poland, J. Edberg, and R. Kimberly. A Genome-Wide Association Study of Host Genetic Determinants of the Antibody Response to Anthrax Vaccine Adsorbed. Vol. 30, Vaccine, 2012, p. 4778-84.
  • Louie, R., J. Guo, J. Rodgers, R. White, N. Shah, S. Pagant, P. Kim, M. Livstone, K. Dolinski, and B. McKinney. A Yeast Phenomic Model for the Gene Interaction Network Modulating CFTR-$Delta$F508 Protein Biogenesis. Vol. 4, Genome medicine, 2012, p. 103.
  • Briney, B., B. McKinney, and J. Crowe, Jr. High-Throughput Antibody Sequencing Reveals Genetic Evidence of Global Regulation of the Naive and Memory Repertoires That Extends across Individuals. Vol. 13, Genes and immunity, 2012, p. 469.
  • Crooke, P., J. Hotchkiss, Y. Lenbury, and B. McKinney. Mathematical Modeling of Patient Care. Vol. 2012, Computational and mathematical methods in medicine, 2012.
  • McKinney, B., and N. Pajewski. Six Degrees of Epistasis: Statistical Network Models for GWAS. Vol. 2, Frontiers in genetics, 2012, p. 109.
  • Rock, M., B. McKinney, S. Yoder, C. Prudom, D. Wright, and J. Crowe, Jr. Identification of Potential Human Respiratory Syncytial Virus and Metapneumovirus T Cell Epitopes Using Computational Prediction and MHC Binding Assays. Journal of Immunological Methods, 2011.
  • Davis, N., A. Pandey, and B. McKinney. Real-World Comparison of CPU and GPU Implementations of SNPrank: A Network Analysis Tool for Genome-Wide Association Studies. Vol. 27, Bioinformatics, 2011, pp. 284–285.
  • Pajewski, N., S. Parker, G. Poland, I. Ovsyannikova, W. Song, K. Zhang, B. McKinney, V. Pankratz, J. Edberg, R. Kimberly, R. Jacobson, J. Tang, and R. Kaslow. The Role of HLA DR-DQ Haplotypes in Variable Antibody Response to Anthrax Vaccine Adsorbed. Genes and Immunity (Nature Publishing), 2011.
  • Rock, M., B. McKinney, S. Yoder, C. Prudom, D. Wright, and J. Crowe, Jr. Identification of Potential Human Respiratory Syncytial Virus and Metapneumovirus T Cell Epitopes Using Computational Prediction and MHC Binding Assays. Vol. 374, Journal of immunological methods, 2011, p. 13-17.
  • Pajewski, N., S. Parker, G. Poland, I. Ovsyannikova, W. Song, K. Zhang, B. McKinney, V. Pankratz, J. Edberg, and R. Kimberly. The Role of HLA–DR–DQ Haplotypes in Variable Antibody Responses to Anthrax Vaccine Adsorbed. Vol. 12, Genes and immunity, 2011, p. 457.
  • Guo, J., D. Tian, B. McKinney, and J. Hartman. Recursive Expectation-Maximization Clustering (REMc): A Method for Identifying Buffering Mechanisms Composed of Phenomic Modules. Vol. 5, Chaos: An Interdisciplinary Journal of Nonlinear Science, 2010, p. 026103.
  • Davis, N., J. Crowe, Jr., N. Pajewski, and B. McKinney. Surfing a Genetic Association Interaction Network to Identify Modulators of Antibody Response to Smallpox Vaccine. Genes and Immunity (Nature Publishing), 2010.
  • Davis, N., A. Pandey, and B. McKinney. Real-World Comparison of CPU and GPU Implementations of SNPrank: A Network Analysis Tool for GWAS. Vol. 27, Bioinformatics, 2010, p. 284-5.
  • Guo, J., D. Tian, B. McKinney, and J. Hartman, IV. Recursive Expectation-Maximization Clustering: A Method for Identifying Buffering Mechanisms Composed of Phenomic Modules. Vol. 20, Chaos: An Interdisciplinary Journal of Nonlinear Science, 2010, p. 026103.
  • Davis, N., J. Crowe, Jr, N. Pajewski, and B. McKinney. Surfing a Genetic Association Interaction Network to Identify Modulators of Antibody Response to Smallpox Vaccine. Vol. 11, Genes and immunity, 2010, p. 630.
  • McKinney, B., J. Crowe, Jr., J. Guo, and D. Tian. Capturing the Spectrum of Interaction Effects in Genetic Association Studies by Simulated Evaporative Cooling Network Analysis. Vol. 5, PLoS Genetics, 2009, p. e1000432.
  • Reif, D., A. Motsinger, B. McKinney, J. Crowe, Jr., and J. Moore. Integrated Analysis of Genetic and Proteomic Data Identifies Biomarkers Associated With Adverse Events Following Smallpox Vaccination. Vol. 10, Genes and Immunity, 2009, pp. 112–119.
  • McKinney, B. New Informatics Approaches for Identifying Biologic Relationships in Time Series Data. Vol. 1, Wiley Interdisciplinary Reviews: Nanomedicine and Nanobiotechnology, 2009, pp. 60–68.
  • Wright, P., A. Durbin, S. Whitehead, M. Ikizler, S. Henderson, J. Blaney, B. Thumar, S. Ankrah, S. Mehta, M. Rock, S. Yoder, B. McKinney, B. Murphy, and A. Schmidt. The Dengue Virus Type 4 Vaccine Candidate rDEN430-4995 Is Highly Attenuated, Safe, and Immunogenic in Healthy Adult Volunteers. Am. J. Trop. Med. Hyg., 2009.
  • McKinney, B., J. Crowe, Jr, J. Guo, and D. Tian. Capturing the Spectrum of Interaction Effects in Genetic Association Studies by Simulated Evaporative Cooling Network Analysis. Vol. 5, PLoS genetics, 2009, p. e1000432.
  • McKinney, B. Informatics Approaches for Identifying Biologic Relationships in Time-Series Data. Vol. 1, Wiley Interdisciplinary Reviews: Nanomedicine and Nanobiotechnology, 2009, p. 60-68.
  • Reif, D., A. Motsinger-Reif, B. McKinney, M. Rock, J. Crowe, Jr, and J. Moore. Integrated Analysis of Genetic and Proteomic Data Identifies Biomarkers Associated With Adverse Events Following Smallpox Vaccination. Vol. 10, Genes and immunity, 2009, p. 112.
  • Wright, P., A. Durbin, S. Whitehead, M. Ikizler, S. Henderson, J. Blaney, B. Thumar, S. Ankrah, M. Rock, and B. McKinney. Phase 1 Trial of the Dengue Virus Type 4 Vaccine Candidate rDEN4$Delta$30-4995 in Healthy Adult Volunteers. Vol. 81, The American journal of tropical medicine and hygiene, 2009, p. 834-41.
  • Xie, J., P. Crooke, B. McKinney, J. Soltman, and S. Brandt. A Computational Model of Quantitative Chromatin Immunoprecipitation (ChIP) Analysis. Vol. 4, Cancer Informatics, 2008, pp. 137–145.
  • Bush, W., T. Edwards, S. Dudek, B. McKinney, and M. Ritchie. Alternative Contingency Table Measures Improve the Power and Detection of Multifactor Dimensionality Reduction. Vol. 9, BMC Bioinformatics, 2008, p. 238.
  • Bibollet-Ruche, F., B. McKinney, F. Wagner, A. Duverger, A. Ansari, and O. Kutsch. Antibody-Mediated Activation of Chimpanzee T Cells via the TCR/CD3 Pathway Is a Function of the Anti-CD3 Antibody Isotype. Vol. 82, Journal of Virology, 2008, pp. 10271–10278.
  • Kallewaard, N., B. McKinney, Y. Gu, A. Chen, B. Prasad, and J. Crowe, Jr. Functional Maturation of the Human Antibody Response to Rotavirus. Vol. 180, The Journal of Immunology, 2008, pp. 3980–3989.
  • Reif, D., B. McKinney, A. Motsinger, S. Chanock, K. Edwards, M. Rock, J. Moore, and J. Crowe, Jr. Genetic Basis for Adverse Events Following Smallpox Vaccination. Vol. 198, Journal of Infectious Diseases, 2008, pp. 16–22.
  • McKinney, B., and D. Tian. Grammatical Immune System Evolution for Reverse EngineeringNonlinear Dynamic Bayesian Models. Vol. 6, Cancer Informatics, 2008, pp. 433–447.
  • Faley, S., K. Seale, J. Hughey, D. Schaffer, B. McKinney, F. Baudenbacher, and J. Wikswo. Microfluidic Platform for Real-Time Signaling Analysis of Multiple Single T Cells in Parallel. Vol. 8, Lab Chip, 2008, pp. 1700–1712.
  • Xie, J., P. Crooke, B. McKinney, J. Soltman, and S. Brandt. A Computational Model of Quantitative Chromatin Immunoprecipitation (ChIP) Analysis. Vol. 6, Cancer informatics, 2008, p. CIN–S295.
  • Bush, W., T. Edwards, S. Dudek, B. McKinney, and M. Ritchie. Alternative Contingency Table Measures Improve the Power and Detection of Multifactor Dimensionality Reduction. Vol. 9, Bmc Bioinformatics, 2008, p. 238.
  • Munjal, A., R. Khandia, R. Tiwari, S. Chakraborty, K. Karthik, K. Dhama, R. Lanciotti, O. Kosoy, J. Laven, and J. Velez. Anamnestic Immune Response to Dengue and Decreased Severity of Yellow Fever. Vol. 13, International Journal of Pharmacology, 2008, p. 1232-9.
  • Kallewaard, N., B. McKinney, Y. Gu, A. Chen, B. Prasad, and J. Crowe. Functional Maturation of the Human Antibody Response to Rotavirus. Vol. 180, The Journal of Immunology, 2008, p. 3980-9.
  • Reif, D., B. McKinney, A. Motsinger, S. Chanock, K. Edwards, M. Rock, J. Moore, and J. Crowe, Jr. Genetic Basis for Adverse Events After Smallpox Vaccination. Vol. 198, The Journal of infectious diseases, 2008, p. 16-22.
  • RELMAN, D., D. REIF, B. McKinney, A. MOTSINGER, S. CHANOCK, K. EDWARDS, M. ROCK, J. MOORE, and J. CROWE. Genetic Basis for Adverse Events After Smallpox Vaccination. Commentary. Vol. 198, The Journal of infectious diseases, 2008.
  • Guo, J., R. Louie, J. Rodgers, I. Singh, L. Fu, B. Mckinney, E. Miller, E. Sorscher, and J. Hartman. Genome-Wide Screening And: 235⋆ Characterization Of Modifiers Of Cftr: 235⋆ Trafficking And Function In Yeast Cell Model: 235⋆. Vol. 43, Pediatric Pulmonology, 2008, p. 284.
  • McKinney, B., and D. Tian. Grammatical Immune System Evolution for Reverse Engineering Nonlinear Dynamic Bayesian Models. Vol. 6, Cancer informatics, 2008, p. CIN–S694.
  • Faley, S., K. Seale, J. Hughey, D. Schaffer, S. VanCompernolle, B. McKinney, F. Baudenbacher, D. Unutmaz, and J. Wikswo. Microfluidic Platform for Real-Time Signaling Analysis of Multiple Single T Cells in Parallel. Vol. 8, Lab on a Chip, 2008, p. 1700-12.
  • Bibollet-Ruche, F., B. McKinney, A. Duverger, F. Wagner, A. Ansari, and O. Kutsch. The Quality of Chimpanzee T-Cell Activation and Simian Immunodeficiency virus/Human Immunodeficiency Virus Susceptibility Achieved via Antibody-Mediated T-Cell receptor/CD3 Stimulation Is a Function of the Anti-CD3 Antibody Isotype. Vol. 82, Journal of virology, 2008, p. 10271-8.
  • McKinney, B., D. Reif, B. White, J. Crowe, Jr., and J. Moore. Evaporative Cooling Feature Selection for Genotypic Data Involving Interactions. Vol. 23, Bioinformatics, 2007, pp. 2113–2120.
  • McKinney, B., N. Kallewaard, J. Crowe, Jr., and J. Meiler. Using the Natural Evolution of a Rotavirus-Specific Human Monoclonal Antibody to Predict the Complex Topography of a Viral Antigenic Site. Vol. 3, Immunome Research, 2007.
  • McKinney, B., D. Reif, B. White, J. Crowe, Jr, and J. Moore. Evaporative Cooling Feature Selection for Genotypic Data Involving Interactions. Vol. 23, Bioinformatics, 2007, p. 2113-20.
  • McKinney, B., N. Kallewaard, J. Crowe, and J. Meiler. Using the Natural Evolution of a Rotavirus-Specific Human Monoclonal Antibody to Predict the Complex Topography of a Viral Antigenic Site. Vol. 3, Immunome research, 2007, p. 8.
  • McKinney, B., D. Reif, M. Rock, K. Edwards, S. Kingsmore, J. Moore, and J. Crowe. Cytokine Expression Patterns Associated With Systemic Adverse Events Following Smallpox Immunization. Vol. 194, Journal of Infectious Diseases, 2006, p. 36092.
  • Reif, D., A. Motsinger, B. McKinney, and J. Moore. Feature Selection Using a Random Forest Classifier for the Integrated Analysis of Multiple Data Types. Proceedings of the IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2006, pp. 171–178.
  • McKinney, B., J. Crowe, H. Voss, P. Crooke, N. Barney, and J. Moore. Hybrid Grammar-Based Approach to Nonlinear Dynamical System Identification from Biological Time Series. Vol. 73, Physical Review E, Statistical, Nonlinear, and Soft Matter Physics, 2006, p. 021912.
  • McKinney, B., D. Reif, M. Ritchie, and J. Moore. Machine Learning for Detecting Gene-Gene Interactions. Vol. 5, Applied Bioinformatics, 2006, pp. 77–88.
  • McKinney, B., D. Reif, M. Rock, K. Edwards, S. Kingsmore, J. Moore, and J. Crowe. Cytokine Expression Patterns Associated With Systemic Adverse Events Following Smallpox Immunization. Vol. 194, The Journal of infectious diseases, 2006, p. 444-53.
  • McKinney, B., J. Crowe, Jr, H. Voss, P. Crooke, N. Barney, and J. Moore. Hybrid Grammar-Based Approach to Nonlinear Dynamical System Identification from Biological Time Series. Vol. 73, Physical Review E, 2006, p. 021912.
  • McKinney, B., D. Reif, M. Ritchie, and J. Moore. Machine Learning for Detecting Gene-Gene Interactions. Vol. 5, Applied bioinformatics, 2006, p. 77-88.
  • McKinney, B., M. Dunn, and D. Watson. Beyond-Mean-Field Results for Atomic Bose-Einstein Condensates at Interaction Strengths Near Feshbach Resonances: A Many-Body Dimensional Perturbation Theory Calculation. Vol. 69, Phys. Rev. A, 2004, p. 043611.
  • McKinney, B., M. Dunn, D. Watson, and J. Loeser. N Identical Particles under Quantum Confinement: A Many-Body Dimensional Perturbation Theory Approach. Vol. 310, Annals of Physics, 2004, p. 56.
  • McKinney, B. BA McKinney, M. Dunn, and DK Watson, Phys. Rev. A 69, 053611 (2004). Vol. 69, Phys. Rev. A, 2004, p. 053611.
  • McKinney, B., M. Dunn, and D. Watson. Beyond-Mean-Field Results for Atomic Bose-Einstein Condensates at Interaction Strengths Near Feshbach Resonances: A Many-Body Dimensional Perturbation-Theory Calculation. Vol. 69, Physical Review A, 2004, p. 053611.
  • Huang, M.- xin, V. Balasubramanian, M. Cvetic, M. Dunn, P. Fendley, B. Feng, E. Fradkin, M. Freedman, G. Gibbons, and F. Guinea. Halpern, MB, 302 Helfgott, C., 302. Vol. 310, Annals of Physics, 2004, p. 554.
  • McKinney, B., M. Dunn, D. Watson, and J. Loeser. N Identical Particles under Quantum Confinement: A Many-Body Dimensional Perturbation Theory Approach. Vol. 310, Annals of Physics, 2004, p. 56-94.
  • McKinney, B. BA McKinney, M. Dunn, DK Watson, and JG Loeser, Ann. Phys.(NY) 310, 56 (2003). Vol. 310, Ann. Phys.(NY), 2003, p. 56.
  • McKinney, B., and D. Watson. Bose-Einstein Condensation in Variable Dimensionality. Vol. 65, Phys. Rev. A, 2002, p. 33604.
  • McKinney, B., and D. Watson. Bose-Einstein Condensation in Variable Dimensionality. Vol. 65, Physical Review A, 2002, p. 033604.
  • McKinney, B., and D. Watson. Semiclassical Dimensional Perturbation Theory for Two Electrons in a D-Dimensional Quantum Dot. Vol. 61, Phys. Rev. B, 2000, p. 4958.
  • McKinney, B., and D. Watson. Semiclassical Perturbation Theory for Two Electrons in a D-Dimensional Quantum Dot. Vol. 61, Physical Review B, 2000, p. 4958.
  • Watson, D., and B. McKinney. An Improved Large-N Limit for Bose-Einstein Condensates from Perturbation Theory. Vol. 59, Phys. Rev. A, 1999, p. 4091.
  • Watson, D., and B. McKinney. Improved Large-N Limit for Bose-Einstein Condensates from Perturbation Theory. Vol. 59, Physical Review A, 1999, p. 4091.
  • Kallewaard, N., B. McKinney, Y. Gu, A. Chen, B. Prasad, and J. Crowe, Jr. 2008. Functional Maturation of the Human Antibody Response to Rotavirus. Vol. 180, J. Immunol, p. 3980-9.
  • Briney, B., B. McKinney, and J. Crowe, Jr. 2012. High-Throughput Antibody Sequencing Reveals Genetic Evidence of Global Regulation of the na”ive and Memory Repertoires That Extends across Individuals. Vol. 13, Genes Immun, p. 469-73.
  • Louie, R., J. Guo, J. Rodgers, R. White, N. Shah, S. Pagant, P. Kim, M. Livstone, K. Dolinski, and B. McKinney. 4th (2012) A Yeast Phenomic Model for the Gene Interaction Network Modulating CFTR-[increment] F508 Protein Biogenesis. Vol. 4, Genome Med, p. 103.
  • McKinney, B., J. Crowe, J. Guo, and D. Tian. PLoS Genetics Volume: 5 ISSN: 1553-7404 ISO Abbreviation: PLoS Genet. Publication Date: 2009 Mar. Detail:.

Conference Proceedings

  • Lareau, C., C. DeWeese, B. White, B. McKinney, and C. Montgomery. “Computationally Efficient Solutions for Functionalizing Common Variants in Three-Dimensional Models”. GENETIC EPIDEMIOLOGY, Vol. 39, 2015, p. 562-.
  • Carley, C. et al. “Using a Shared, Remote Cluster for Teaching HPC.” IEEE Cluster. 2013. Print.

  • Carley, C., L. Sells, B. McKinney, C. Zhao, and H. Neeman. “Using a Shared, Remote Cluster for Teaching HPC”. Cluster Computing (CLUSTER), 2013 IEEE International Conference on, 2013, p. 1-6.
  • Poland, G., R. Kennedy, B. McKinney, I. Ovsyannikova, N. Lambert, R. Jacobson, and A. Oberg. “Vaccinomics, Adversomics, and the Immune Response Network Theory: Individualized Vaccinology in the 21st Century”. Seminars in Immunology, Vol. 25, 2013, p. 89-103.
  • Pajewski, N., V. Srinivasasainagendra, and B. McKinney. “Modifications to the ReliefF GWAS Filter for Detecting Gene-Gene Interactions: Inclusion of Covariate and Pathway Information”. GENETIC EPIDEMIOLOGY, Vol. 33, 2009, p. 773-.
  • Poster, D., B. McKinney, J. Crowe, and T. Kepler. “A Kernel Method for Subpopulation Discovery and Analysis in Multicolor Flow Cytometry”. JOURNAL OF IMMUNOLOGY, Vol. 176, 2006, p. S12–S12.
  • Reif, D., A. Motsinger, B. McKinney, J. Crowe, and J. Moore. “Feature Selection Using a Random Forests Classifier for the Integrated Analysis of Multiple Data Types”. Computational Intelligence and Bioinformatics and Computational Biology, 2006. CIBCB’06. 2006 IEEE Symposium on, 2006, p. 1-8.
  • McKinney, B., M. Dunn, and D. Watson. “Ground-State Energies and Collective Excitations for Atomic Bose-Einstein Condensates in the Large-Gas-Parameter Regime”. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts, 2003.
  • Dunn, M., B. McKinney, and D. Watson. “Formalism for Matrix Elements of Many-Body Systems from Dimensional Perturbation Theory”. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts, 2002.
  • McKinney, B., M. Dunn, and D. Watson. “Many-Body Study of the Ground-State of a Bose-Einstein Condensate: A Dimensional Perturbation Theory Approach”. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts, 2002.
  • McKinney, B., and D. Watson. “Bose-Einstein Condensation in D-Dimensions”. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts, Vol. 46, 2001.
  • McKinney, B., M. Dunn, and D. Watson. “Two Cold Atoms in a Trap and the D-Dimensional Pseudopotential”. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts, Vol. 46, 2001.
  • McKinney, B., and D. Watson. “Beyond the Gross-Pitaevskii Equation, Quantum Many-Body Perturbation Theory for Bose-Einstein Condensates”. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts, 2000.

Book Chapters

  • Lareau, C., and Brett McKinney. “Network Theory for Data-Driven Epistasis Networks.” Epistasis: Method and Protocols, Methods in Molecular Biology. Vol. 1253. 2015. 285–300. Print.

  • Lareau, C., and B. McKinney. “Network Theory for Data-Driven Epistasis Networks”. Epistasis, Humana Press, New York, NY, 2015, p. 285-00.

Other

  • McKinney, B., and N. Pajewski. Six Degrees of Epistasis: Statistical Network Models for GWAS. Front Genet 2: 109. 2011.
  • McKinney, B. Interdisciplinary Reviews: Nanomedicine and Nanotechnology. Wiley, 2008.
  • Mckinney, B. Many-Body Dimensional Perturbation Theory for Quantum Confined Systems With a Focus on Atomic Gas Bose-Einstein Condensates. 2003.

Courses Taught

  • Special Topics
  • Special Topics in Computer Science
  • Research and Dissertation