Klinke:Publications

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== Publications ==
== Publications ==
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*'''Note:''' Search [http://pubget.com/search?q=%22klinke%20dj%22 "klinke dj"] via PubGet for a third-party automatically generated set of PubMed-listed publications from the lab.
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<biblio>
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#NWU-1 Klinke DJ 2nd and Broadbelt LJ, ''Mechanism Reduction during Computer Generation of Compact Reaction Models'', AIChE J. 1997; 43:1828-1837.  
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# Klinke DJ 2nd and Broadbelt LJ, ''Mechanism Reduction during Computer Generation of Compact Reaction Models'', AIChE J 1997; 43:1828-1837.  
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#NWU-2 Klinke DJ 2nd, Wilke S, and Broadbelt LJ, ''A Theoretical Study of Carbon Chemisorption on Ni(111) and Co(0001) Surfaces'',  J. Catal. 1998; 178:540-554.  
+
# Klinke DJ 2nd, Wilke S, and Broadbelt LJ, ''A Theoretical Study of Carbon Chemisorption on Ni(111) and Co(0001) Surfaces'',  J Catal 1998; 178:540-554.  
-
#NWU-3 Klinke DJ 2nd and Broadbelt LJ, ''Construction of a Mechanistic Model of Fischer-Tropsch Synthesis on Ni(111) and Co(0001) Surfaces'', Chem. Eng. Sci. 1999; 54:3379-3389.  
+
# Klinke DJ 2nd and Broadbelt LJ, ''Construction of a Mechanistic Model of Fischer-Tropsch Synthesis on Ni(111) and Co(0001) Surfaces'', Chem Eng Sci 1999; 54:3379-3389. <br> The first application of a rule-based reaction network generation algorithm to heterogeneous catalytic chemistry.
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// The first application of a rule-based reaction network generation algorithm to heterogeneous catalytic chemistry.
+
# Klinke DJ 2nd, Dooling DJ, and Broadbelt LJ, ''A Theoretical Study of Methylidyne Chemisorption on Ni(111) and Co(0001) Surfaces''; Surf Sci 1999; 425:334-342.  
-
#NWU-4 Klinke DJ 2nd, Dooling DJ, and Broadbelt LJ, ''A Theoretical Study of Methylidyne Chemisorption on Ni(111) and Co(0001) Surfaces''; Surf. Sci. 1999; 425:334-342.  
+
# Klinke DJ 2nd and Broadbelt LJ, ''A Theoretical Study of Hydrogen Chemisorption on Ni(111) and Co(0001) Surfaces'', Surf Sci 1999; 429:169-177.  
-
#NWU-5 Klinke DJ 2nd and Broadbelt LJ, ''A Theoretical Study of Hydrogen Chemisorption on Ni(111) and Co(0001) Surfaces'', Surf. Sci. 1999; 429:169-177.  
+
# Broadbelt LJ and Klinke DJ 2nd, ''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.  
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#NWU-6 Broadbelt LJ and Klinke DJ 2nd, ''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.  
+
# Klinke DJ 2nd, ''The ratio of P40 monomer to dimer is an important determinant of IL-12 bioactivity'',
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#WVU-1 pmid=16448670
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J Theor Biol 2006; 240:323-35. PMID 16448670
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#WVU-2 pmid=17030902
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# Klinke DJ 2nd, ''An age-structured model of dendritic cell trafficking in the lung'', Am J Physiol Lung Cell Mol Physiol 2006; 291:L1038-49. PMID 17030902
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#WVU-3 pmid=17457675
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# Klinke DJ 2nd, ''A multi-scale model of dendritic cell education and trafficking in the lung: implications for T cell polarization'', Ann Biomed Eng 2007; 35:937-55. PMID 17457675
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#WVU-4 pmid=18046647
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# Klinke DJ 2nd, ''Integrating epidemiological data into a mechanistic model of type 2 diabetes: validating the prevalence of virtual patients'', Ann Biomed Eng 2008; 36:321-34. PMID 18046647 <br>
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// Provides a glimpse of the size and complexity of the proprietary PhysioLab models developed by [http://www.entelos.com/ Entelos, Inc.]
+
Provides a glimpse of the size and complexity of the proprietary PhysioLab models developed by [http://www.entelos.com/ Entelos, Inc.]
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#WVU-5 pmid=18167535
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#WVU-5 pmid 18167535
// Evaluates the conventional wisdom regarding the extent of beta cell destruction required before presenting with symptoms of type 1 diabetes.
// Evaluates the conventional wisdom regarding the extent of beta cell destruction required before presenting with symptoms of type 1 diabetes.
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#WVU-6 pmid=18281385
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#WVU-6 pmid 18281385
// 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.  
// 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.  
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#WVU-7 pmid=19513847
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#WVU-7 pmid 19513847
// Develops and validates a dimensionless number for the ratio of insulin production and insulin-dependent glucose metabolism in humans.
// Develops and validates a dimensionless number for the ratio of insulin production and insulin-dependent glucose metabolism in humans.
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#WVU-8 pmid=19582872
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#WVU-8 pmid 19582872
// Provides a tutorial for using R/Bioconductor to process flow cytometry data.
// Provides a tutorial for using R/Bioconductor to process flow cytometry data.
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#WVU-9 pmid=19767469
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#WVU-9 pmid 19767469
// Describes an approach to distinguish with confidence among ''B. anthracis'' strains using variability in collagen-like proteins. This addresses one of the problems with finding the perpetrators of the ''B. anthracis'' attacks on the U.S. Capital in 2001.  
// Describes an approach to distinguish with confidence among ''B. anthracis'' strains using variability in collagen-like proteins. This addresses one of the problems with finding the perpetrators of the ''B. anthracis'' attacks on the U.S. Capital in 2001.  
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#WVU-10 pmid=19900289
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#WVU-10 pmid 19900289
// This is a highly accessed publication in BMC Bioinformatics
// This is a highly accessed publication in BMC Bioinformatics
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#WVU-11 pmid=20179207
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#WVU-11 pmid 20179207
// This publication was highlighted as Research News on the [http://physics.cancer.gov/news/2010/march/po_news_f.asp Physical Sciences in Oncology website] hosted by the National Cancer Institute.  
// This publication was highlighted as Research News on the [http://physics.cancer.gov/news/2010/march/po_news_f.asp Physical Sciences in Oncology website] hosted by the National Cancer Institute.  
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#WVU-12 pmid=20479776
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#WVU-12 pmid 20479776
// This publication uses an empirical Bayesian approach to infer the contributions of different mechanisms that regulate IL-12 signaling in naïve CD4+ T cells derived from Balb/c mice.
// This publication uses an empirical Bayesian approach to infer the contributions of different mechanisms that regulate IL-12 signaling in naïve CD4+ T cells derived from Balb/c mice.
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#WVU-13 pmid=20550684
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#WVU-13 pmid 20550684
// This publication uses a proteomics workflow that includes 2D-gel electrophoresis and MALDI-TOF MS peptide mass fingerprinting to identify predominant pathways in two breast cancer cell models.
// This publication uses a proteomics workflow that includes 2D-gel electrophoresis and MALDI-TOF MS peptide mass fingerprinting to identify predominant pathways in two breast cancer cell models.
#WVU-14 Klinke DJ 2nd, ''A multiscale systems perspective on cancer, immunotherapy, and Interleukin-12'', Molecular Cancer 2010 Sept 15; 9:242.
#WVU-14 Klinke DJ 2nd, ''A multiscale systems perspective on cancer, immunotherapy, and Interleukin-12'', Molecular Cancer 2010 Sept 15; 9:242.
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== Patents and Patent Applications ==
== Patents and Patent Applications ==
# Defranoux, N.A.; Dubnicoff, T.B.; Klinke, D.J.; Lewis, A.K.; Paterson, T.S.; Ramanujan, S.; Shoda, L.K.M.; Soderstrom, K.P.; Struemper, H.K.; "Method and apparatus for computer modeling a joint", US Patent #6,862,561.
# Defranoux, N.A.; Dubnicoff, T.B.; Klinke, D.J.; Lewis, A.K.; Paterson, T.S.; Ramanujan, S.; Shoda, L.K.M.; Soderstrom, K.P.; Struemper, H.K.; "Method and apparatus for computer modeling a joint", US Patent #6,862,561.

Revision as of 14:45, 18 January 2011

The Klinke Lab @ West Virginia University

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Publications

  • Note: Search "klinke dj" via PubGet for a third-party automatically generated set of PubMed-listed publications from the lab.


  1. Klinke DJ 2nd and Broadbelt LJ, Mechanism Reduction during Computer Generation of Compact Reaction Models, AIChE J 1997; 43:1828-1837.
  2. Klinke DJ 2nd, Wilke S, and Broadbelt LJ, A Theoretical Study of Carbon Chemisorption on Ni(111) and Co(0001) Surfaces, J Catal 1998; 178:540-554.
  3. Klinke DJ 2nd and Broadbelt LJ, Construction of a Mechanistic Model of Fischer-Tropsch Synthesis on Ni(111) and Co(0001) Surfaces, Chem Eng Sci 1999; 54:3379-3389.
    The first application of a rule-based reaction network generation algorithm to heterogeneous catalytic chemistry.
  4. Klinke DJ 2nd, Dooling DJ, and Broadbelt LJ, A Theoretical Study of Methylidyne Chemisorption on Ni(111) and Co(0001) Surfaces; Surf Sci 1999; 425:334-342.
  5. Klinke DJ 2nd and Broadbelt LJ, A Theoretical Study of Hydrogen Chemisorption on Ni(111) and Co(0001) Surfaces, Surf Sci 1999; 429:169-177.
  6. Broadbelt LJ and Klinke DJ 2nd, 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.
  7. Klinke DJ 2nd, The ratio of P40 monomer to dimer is an important determinant of IL-12 bioactivity,

J Theor Biol 2006; 240:323-35. PMID 16448670

  1. Klinke DJ 2nd, An age-structured model of dendritic cell trafficking in the lung, Am J Physiol Lung Cell Mol Physiol 2006; 291:L1038-49. PMID 17030902
  2. Klinke DJ 2nd, A multi-scale model of dendritic cell education and trafficking in the lung: implications for T cell polarization, Ann Biomed Eng 2007; 35:937-55. PMID 17457675
  3. Klinke DJ 2nd, Integrating epidemiological data into a mechanistic model of type 2 diabetes: validating the prevalence of virtual patients, Ann Biomed Eng 2008; 36:321-34. PMID 18046647

Provides a glimpse of the size and complexity of the proprietary PhysioLab models developed by Entelos, Inc.

  1. WVU-5 pmid 18167535

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

  1. WVU-6 pmid 18281385

// 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.

  1. WVU-7 pmid 19513847

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

  1. WVU-8 pmid 19582872

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

  1. WVU-9 pmid 19767469

// Describes an approach to distinguish with confidence among B. anthracis strains using variability in collagen-like proteins. This addresses one of the problems with finding the perpetrators of the B. anthracis attacks on the U.S. Capital in 2001.

  1. WVU-10 pmid 19900289

// This is a highly accessed publication in BMC Bioinformatics

  1. WVU-11 pmid 20179207

// This publication was highlighted as Research News on the Physical Sciences in Oncology website hosted by the National Cancer Institute.

  1. WVU-12 pmid 20479776

// This publication uses an empirical Bayesian approach to infer the contributions of different mechanisms that regulate IL-12 signaling in naïve CD4+ T cells derived from Balb/c mice.

  1. WVU-13 pmid 20550684

// This publication uses a proteomics workflow that includes 2D-gel electrophoresis and MALDI-TOF MS peptide mass fingerprinting to identify predominant pathways in two breast cancer cell models.

  1. WVU-14 Klinke DJ 2nd, A multiscale systems perspective on cancer, immunotherapy, and Interleukin-12, Molecular Cancer 2010 Sept 15; 9:242.
  2. WVU-15 Klinke DJ 2nd, Inferring the dynamic role of beta cell function in the natural history of diabetes using mathematical prototypes, 2010 submitted.

</biblio>


{{}}

Patents and Patent Applications

  1. Defranoux, N.A.; Dubnicoff, T.B.; Klinke, D.J.; Lewis, A.K.; Paterson, T.S.; Ramanujan, S.; Shoda, L.K.M.; Soderstrom, K.P.; Struemper, H.K.; "Method and apparatus for computer modeling a joint", US Patent #6,862,561.
  2. Kelly, S.D.; Klinke, D.J.; Leong, C.; Lewis, A.K.; Okino, M.S.; Paterson, T.S.; Shoda, L.K.M.; Stokes, C.; Struemper, H.K.; "Method and apparatus for computer modeling of an adaptive immune response", US Patent Application #10/154,123.
  3. Friedrich, C.M.; Kansal, A.; Klinke, D.J.; Michelson, S.G.; Paterson, T.S.; Polidori, D.; Trimmer, J.; Wennerberg, L.G.; "Defining Virtual Patient Populations", US Patent Application #11/346,990.
  4. Defranoux, N.A.; Dubnicoff, T.B.; Klinke, D.J.; Lewis, A.K.; Paterson, T.S.; Ramanujan, S.; Shoda, L.K.M.; Soderstrom, K.P.; Struemper, H.K.; "Method and apparatus for computer modeling a joint", US Patent #7,472,050.
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