Susceptibility Testing and Prevalence Estimation

I have been working with the Antimicrobial Susceptbility Testing Subcommittee of NCCLS since January of 1998. While we've jointly been collaborating on ways to improve the current diameter breakpoint determination procedure (modified error-rate bounded method), I've been working on a Bayesian approach to the problem.  These papers summarizes this work. This research was supported by NIH (R01 AI48067-01A1).
 
• Annis, D.H. and Craig, B.A. (2005). The Effect of Inter-Laboratory Variability on Antimicrobial Susceptibility Determination. Diagnostic Medicine and Infectious Diseases , 53(1), 61-64.
• Annis, D.H. and Craig, B.A. (2005). Statistical properties and inference of the antimicrobial MIC test. Statistics in Medicine , 24(23), 3631-3644.
• Craig B.A. (2000). Modeling Approach to Breakpoint Determination, Diagnostic Microbiology and Infectious Disease, 36(3), 193-202.
• Black, M.A. and Craig, B.A. (2002). Estimating disease prevalence in the absence of a gold standard, Statistics in Medicine, 21(18), 2653-2669.
• Black, M.A., Jones, R.D., Carroll, G.J., Craig, B.A. (1999). A Bayesian approach to the assessment of diagnostic test accuracy in the absence of a gold standard. American Statistical Association, Proceedings of the Section on Statistics and Epidemiology, 94-98.

Protein Structure Determination

I have been collaborating with Dr. Alan Friedman (Biology, Purdue) and Dr. Chris Bailey-Kellogg (CS, Dartmouth) on a systematic framework for inference about structural properties of proteins on the basis of multimodal experimental data. This research is currently supported by NSF (5-34001.571).
 
• Vitek, O., Bailey-Kellogg, C., Craig, B.A., Vitek, J. (2006). Inferential Backbone Assignment for Sparse Data, Journal of Biomolecular NMR, online first, 1-22.
• Vitek, O., Bailey-Kellogg, Craig, B.A., Kuliniewicz, P. and Vitek, J. (2005). Reconsidering Complete Search Algorithms for Protein Backbone NMR Assignment, Bioinformatics, 21, ii230-ii236.
• Vitek, O., Vitek, J., Craig, B.A., and Bailey-Kellogg, C. (2004). Model-Based Assignment and Inference of Protein Backbone Nuclear Magnetic Resonances, Statistical Applications in Genetics and Molecular Biology , 3(1) , Article 6.

Bioinformatics

• Wang, C., Xie, J., and Craig, B.A. (2006). Context dependent models for discovery of transcription factor binding sites, Statistical Methodology , 3(1), 55-68.
• McFarlin, B.K., Flynn, M.G., Campbell, W.W., Craig, B.A., Robinson, J.P., Stewart, L.K., Timmerman, K.L., and Coen, P.M. (2006). Physical activity status, but not age, influences inflammatory biomarkers and toll-like receptor 4, Journal of Gerontology Series A-Biological Sciences & Medical Sciences , 61(4), 388-393.
• Mohammed, S.I., Dhawan, D., Abraham, S., Snyder, P.W., Waters, D.J., Craig, B.A., Lu, M., Wu, L., Zheng, R., Stewart, J., and Knapp, D.W. (2006). Cyclooxygenase inhibitors in urinary bladder cancer: in vitro and in vivo effects, Molecular Cancer Therapeutics , 5(2) , 329-336.
• Stewart, L.K., Flynn, M.G., Campbell, W.W., Craig, B.A., Robinson, J.P., McFarlin, B.K., Timmerman, K.L., Coen, P.M., Felker, J., and Talbert, E. (2005). Influence of exercise training and age on CD14+ cell-surface expression of toll-like receptor 2 and 4, Brain, Behavior, and Immunity, 19 , 389-397.

Disease Modeling

While at Wisconsin, I was fortunate to work with Dennis Fryback and Ronald and Barbara Klein on a disease modeling project. This led to my collaboration with Peter Sendi et al. Much of this research is funded in some part by a NEI small research grant concerning the modeling of diabetic retinopathy.
 
• Liu, Y. and Craig, B.A. (2005). Incorporating time-dependent covariates in survival analysis using the LVAR method. Statistics in Medicine, 25(10), 1729-1740.
• Craig B.A. and Sendi P. (2002). Estimation and Uncertainty of the transition matrix of a homogeneous Markov chain, Health Economics, 11(1), 33-42.
• Sendi, P., Palmer, A.J., Hauri, P., Craig, B.A., Horber, F.F. (2002). Modeling the impact of adjustable gastric banding on survival in patients with morbid obesity, Obesity Research, 10, 291-295.
• Mohammed, S.I., Bennett, P.F., Glickman, N.W., Mutsaers, A.J., Snyder, P.W., Craig, B.A., Widmer, W.R., DeGortari, A.E., Bonney, P.I., and Knapp, D.W. (2002). Effect of the cyclooxygenase inhibitor, piroxicam, on tumor response, apoptosis, and angiogensis in canine model of human invasive urinary bladder cancer, Cancer Research , 62(2), 356-358.
• Craig B.A. and Black, M.A. (2001). Incremental cost-effectivness ratio and incremental net-health benefit: two sides of the same coin. Expert Review of Pharmacoeconomics & Outcomes Research, 1(1), 37-46.
• Craig, B.A., Black, M.A., and Sendi, P.P. (2000). Uncertainty in decision models analyzing cost effectiveness: A comment, Medical Decision Making , 20(1), 135-136.
• Craig B.A., Fryback D.G., Klein R, and Klein B.E.K. (1999). A Bayesian approach to modeling the natural history of a chronic condition from observations with intervention. Statistics in Medicine, 18, 1355-1371.
• Sendi, P.P., Craig, B.A., Meier, G., Pfluger, D., Gafni, A., Opravil, M., Battegay, M., Bucher, H.C. (1999). Cost effectiveness of azithromycin for preventing Mycobacterium avium complex infection in HIV-positive patients in the era of highly active antiretroviral, J Antimicrobial Chemotherapy , 44, 811-817.
• Sendi P.P., Bucher H.C., Harr T., Craig B.A., Schwietert M., Pfluger D., Gafni A., and Battegay M. (1999). Cost effectiveness of highly active antiretroviral therapy in HIV infected patients, AIDS , 13, 1115-1122.
• Sendi P.P., Craig B.A., Pfluger D., Gafni A., Bucher H.C. (1999). Systematic validation of disease models for pharmacoeconomic evaluations. Journal of Evaluation in Clinical Practice , 5 , 283-295.
• Sendi P.P., Bucher H.C., Craig B.A., Pfluger D., and Battegay M. (1999). Estimating AIDS-free survival in a severely immunosuppressed asymptomatic HIV-infected population in the era of antiretroviral triple combination therapy, Journal of Acquired Immunedeficiency Syndromes and Human Retrivirology, 20 , 376-381.
• Craig, B.A. and Newton, M.A. (1997). Modeling the history of diabetic retinopathy in Case Studies in Bayesian Statistics III, C. Gatsonis et al. eds, New York: Springer-Verlag, 305--323.
• Mehta, M.P., Noyes, W.R., Craig, B.A., Lamond, J.P., Auchter, R.M., French, M.C., Johnson, M.N., Levin, A.B., Badie, B., Robins, H.I., and Kinsella, T.K. (1997). A cost-effectiveness and cost-utility analysis of radiosurgery versus resection for single brain metastases, International Journal of Radiation Oncology, Biology, Physics, 39 , 445--454.
• Noyes W.R., Mulcahy, R.T., Craig B.A., and Kinsella T.J. (1996). The effect of a pure anti-estrogen, ICI 182,780, on the in vitro radiosensitivity of MCF-7 breast carcinoma cells, Radiation Oncology Investigations, 3, 232-237.

Design and Analysis of Gene Expression Data

• Craig, B.A. (2005). Discussion of Semilinear high-dimensional model for normalization of microarray data: a theoretical analysis and partial consistency, Journal of the American Statistical Society, 100, 799-800.
• B.A. Craig, M.A. Black, and R.W. Doerge. (2003). Gene Expression Data: The technology and statistical analysis, Journal of Agricultural, Biological, and Environmental Statistics (JABES), 8(1) :1-28.
• Fleet, J.C., Wang, L., Vitek, O., Craig, B.A., and Edenberg, H.J. (2003). Gene expression profiling of Caco-2 BBe cells suggests a role for specific signaling pathways during intestinal differentiation Physiol. Genomics , 10.1152/physiolgenomics.00152.2002.
• Craig, B.A., Vitek, O., Black, M.A., Tanurdzic, M., and Doerge, R.W. (2002). Designing Microarrays, in Proceedings of the 2001 Kansas State University Conference on Applied Statistics in Agriculture, G.A. Milliken ed., Manhattan, KS: Department of Statistics, 159-182.

QTL Analysis in Polyploids

• Cao, D., Craig, B.A., and Doerge, R.W. (2005). A maximum likelihood based interval mapping method for autopolyploids. Genetics , 169(4), 2371-2382.
• Cao, D., Craig, B.A., and Doerge, R.W. (2005). Bayesian Quantitative Trait Mapping for Autopolyploids. Proceedings of the 2004 Kansas State University Conference on Applied Statistics in Agriculture, G.A. Milliken ed., Manhattan, KS : Department of Statistics, 172-186.
• Cao, D., Craig, B.A., and Doerge, R.W. (2004). Interval Mapping for Autopolyploids. Proceedings of the 2003 Kansas State University Conference on Applied Statistics in Agriculture, G.A. Milliken ed., Manhattan, KS : Department of Statistics, 60-69.
• Doerge, R.W. and Craig, B.A. (2001). An introduction to model selection for quantitative trait locus analysis in polyploids. Proceedings of the 2000 Kansas State University Conference on Applied Statistics in Agriculture , 13-27.
• Doerge, R.W. and Craig, B.A. (2000). Model selection for quantitative trait locus analysis in polyploids. Proceedings of the National Academy of Science, 97(14) , 7951-7956.

Population Dynamics

• Craig, B.A. and Reynolds III, J.E. (2004). Determination of manatee population trends using a Bayesian approach with temperature-adjusted aerial survey data, Marine Mammal Science, 20 , 386-400.
• Gross, K., Craig, B.A., and Hutchison, W.D. (2002). Bayesian estimation of a demographic matrix model from stage-frequency data, Ecology , 83(12), 3285-3298.
• Craig, B.A., Newton, M.A., Garrott, R.A., Reynolds III, J.E. and Wilcox, J.R. (1997). Analysis of aerial survey data on Florida Manatee using Markov chain Monte Carlo. Biometrics, 53(2), 129-146.

Biodiversity

• Craig, B.A., Gu, W. and Feng, Z. (2003). Developing an integrated model of land-use/land-cover change, in R.K. Swihart and J.E. Moore, eds. Conserving biodiversity in agricultural landscapes: model-based planning tools. Purdue University Press, West Lafayette, Indiana. In press.
• DeWoody, Y., Swihart, R.K., Craig, B.A., and Goheen, J.R. (2003). Diversity and Stability in Communities Structured by Asymmetric Resource Allocation, American Naturalist , 162(4), 514-527.

Crack Growth Modeling

• Laz, P.J., Hillberry, B.M., and Craig, B.A. (2001). A probabilistic total fatigue life model incorporating stress level, International Journal of Fatigue, 23 S119-S127.
• van der Walde, K. Brockenbrough, J.R., Craig B.A., Hillberry, B.M. (2005). Multiple fatigue crack growth in pre-corroded 2024-T3 aluminum, International Journal of Fatigue , 27 , 1509-1518.
• Laz, P.J., Craig, B.A., Rohrbaugh, S. M. and Hillberry, B.M. (1999). The development of a total fatigue life approach accounting for nucleation and propagation. Fatigue '99 : Proceedings of the Seventh International Fatigue Congress, 2, 833-838.
• Gruenberg K.M., Craig B.A., Hillberry B.M., Bucci R.J., and Hinkle A.J. (2004). Predicting fatigue life of pre-corroded 2024-T3 aluminum from breaking load tests. International Journal of Fatigue, 26 , 615-627.
• Gruenberg K.M., Craig B.A., Hillberry B.M., Bucci R.J., and Hinkle A.J. (2004). Predicting fatigue life of pre-corroded 2024-T3 aluminum. International Journal of Fatigue , 26, 629-640.
• Hillberry, B.M., Laz, P.J., Gruenberg, K.M., Debartolo E.A., and Craig, B.A. (1999). Inherent material behavior and widespread fatigue. Fatigue '99 : Proceedings of the Seventh International Fatigue Congress, 4, 2539-2544.
• Gruenberg K.M., Craig B.A., and Hillberry B.M. (1999). A probabilistic method for predicting the variability in fatigue behavior of 7075-T6 aluminum, Journal of the American Institute of Aeronautics and Astronautics, 37, 1304-1310.

Nonlinear Mixed Models

• Schinckel, A.P. and Craig, B.A. (2002). Evaluation of Alternative Nonlinear Mixed Effects Models of Swine Growth, The Professional Animal Scientist , 18, 219-226.
• Craig, B.A. and Schinckel, A.P. (2001). Nonlinear mixed effects model for swine growth, The Professional Animal Scientist , 17(4), 256-260.
• Weigel K.A., Craig B.A., Bidwell T.R., Bates, D.M., (1992). Comparisons of alternative diphasic curve models under bovine somatotropin administration, Journal of Dairy Science, 75, 580-589.

Other

• Annis, D.H. and Craig, B.A. (2005). Hybrid Paired Comparison Analysis, with Applications to the Ranking of College Football Teams, Journal of Quantitative Analysis in Sports , 1(1), Article 3.
• Eberts, C., Eberts R., and Craig, B. (1999). Interactive Remedial Statistics Learning Modules for the Internet. Proceeedings of the Human Factors and Ergonomics Society, 43 , 530-534.
• Burr, A.F., Craig, B.A., Chung, C-G, So, T-S. H., Deveau, T.J., and Shirer, D.L. (1999). Programs for Statistics and Data Analysis, Computing in Science and Engineering, 1(1), 17-21.

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