Klinke:Publications

Publications

1. Leski, T. A.; Caswell, C. C.; Pawlowski, M.; Klinke, D. J.; Bujnicki, M.; Hart, S. J.; Lukomski, S.; “bcl- Genes of Bacillus cereus Group Organisms: Identification, Classification and Application in Anthrax Detection and Fingerprinting", Appl Environ Microbiol in press (2009).

2. Klinke, D. J.; “An Empirical Bayesian Approach for Model-based Inference of Cellular Signaling Networks", BMC Bioinformatics in press (2009).

3. Klinke, D. J.; “Validating a Dimensionless Number for Glucose Homeostasis in Humans", Ann. Biomed. Eng. in press (2009).

   Develops and validates a dimensionless number for the ratio of insulin production and insulin-dependent glucose metabolism in humans.

4. Klinke, D. J.*; Brundage, K; “Scalable Analysis of Flow Cytometry Data using R/Bioconductor", Cytometry A 75A:699-706 (2009). *corresponding author

   Provides a tutorial for using R/Bioconductor to process flow cytometry data.

5. Klinke, D. J.; “Extent of Beta Cell Destruction is Important but Insufficient to Predict the Onset of Type 1 Diabetes Mellitus”, PLoS ONE 3:e1374 (2008).

   Evaluates the conventional wisdom regarding the extent of beta cell destruction required before presenting with symptoms of type 1 diabetes.

6. Klinke, D. J.*; Ustyugova, I. V.; Brundage, K.; Barnett, J. B.; “Modulating Temporal Control of NF-kappaB Activation: Implications for Therapeutic and Assay Selection”, Biophysical J. 94:4249-4259 (2008). *corresponding author

   Finds that our ability to observe significant biological events is limited by the signal-to-noise characteristics of the assays that we use to observe cellular responses.

7. Klinke, D. J.; “Integrating Epidemiological Data into a Mechanistic Model of Type 2 Diabetes: Validating the Prevalence of Virtual Patients”, Ann. Biomed. Eng. 36:321-334 (2008).

   Provides a glimpse of the kind of models developed by Entelos, Inc.

8. Klinke, D.J.; “A Multi-scale Model of Dendritic Cell Education and Trafficking in the Lung: Implications for T Cell Polarization”, Ann. Biomed. Eng. 35:937-955 (2007).

9. Klinke, D.J.; “An Age-Structured Model of Dendritic Cell Trafficking in the Lung”, Am. J. Physiol. Lung Cell. Mol. Physiol. 291:L1038-L1049 (2006).

10. Klinke, D.J.; “The Ratio of P40 Monomer to Dimer is an Important Determinant of IL-12 Bioactivity”, J. Theor. Bio. 240:323-335 (2006).

11. Broadbelt, L. J. and Klinke, D. J., "Kinetics of Catalyzed Reactions – D (Heterogeneous)" in Encyclopedia of Catalysis, Istvan T. Horvath (Editor-in-Chief), ISBN 0-471-24183-0, pp. 4772, December 2002.

12. Klinke, D. J. and Broadbelt, L. J., "A Theoretical Study of Hydrogen Chemisorption on Ni(111) and Co(0001) Surfaces", Surf. Sci. 429:169-177 (1999).

13. , D. J.; Dooling, D. J.; and Broadbelt, L. J.; "A Theoretical Study of Methylidyne Chemisorption on Ni(111) and Co(0001) Surfaces"; Surf. Sci. 425:334-342 (1999).

14. Klinke, D. J. and Broadbelt, L. J., "Construction of a Mechanistic Model of Fischer-Tropsch Synthesis on Ni(111) and Co(0001) Surfaces", Chem. Eng. Sci. 54:3379-3389 (1999).

    The first application of an automatic reaction network generation algorithm to catalytic chemistry.

15. Klinke, D. J.; Wilke, S.; and Broadbelt, L. J.; "A Theoretical Study of Carbon Chemisorption on Ni(111) and Co(0001) Surfaces", J. Catal. 178:540-554 (1998).

16. Klinke, D. J. and Broadbelt, L. J., "Mechanism Reduction during Computer Generation of Compact Reaction Models", AIChE J. 43:1828-1837 (1997).