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Biological and Environmental Systems Engineering Laboratory

Publications

Selected Journal Papers

  1. Catherine Sharo, Jiayu Zhang, Tianhua Zhai, Jingxuan Bao, Andrés Garcia-Epelboim, Elizabeth Mamourian, Li Shen, Zuyi Huang. Repurposing FDA-Approved Drugs Against Potential Drug Targets Involved in Brain Inflammation Contributing to Alzheimer’s Disease. Targets, in press, 2024
  2. Y Liu, F Zhang, JL. Hawkins, JR Elder, GM Baranzoni, Z Huang, P Fratamico, S Perveen. Comparative Gene Expression Analysis of Salmonella Typhimurium DT104 in Ground Chicken Extract and Brain Heart Infusion Broth. Microorganisms, in press,12(7):1461, 2024
  3. C Sharo, T Zhai, Z Huang. Investigation of Potential Drug Targets Involved in Inflammation Contributing to Alzheimer's Disease Progression. Pharmaceuticals (Basel). 17(1):137, 2024.
  4. R Hanes, Y Liu, Z Huang. Druggability Analysis of Protein Targets for Drug Discovery to Combat Listeria monocytogenes. Microorganisms. 12(6):1073, 2024.
  5. M Passero, T Zhai, Z Huang. Investigation of Potential Drug Targets for Cholesterol Regulation to Treat Alzheimer’s Disease. International Journal of Environmental Research and Public Health, 20(13), 6217, 2023.
  6. T Zhai, E Krass, F Zhang, Z Huang. A Computational Framework for Identifying Chemical Compounds to Bind Apolipoprotein E4 for Alzheimer’s Disease Intervention. Frontiers in Systems Biology-Translational Systems Biology and In Silico Trials, Frontiers in Systems Biology, 3:1188430, 2023.
  7. R Hanes, F Zhang, Z Huang. Investigation of Interaction of Stress Response, Virulence, and Antibiotic Resistance in Listeria monocytogenes through Protein Network Analysis. Microorganisms, 11(4), 930, 2023.
  8. B Hopkins, J Fisher, M Chang, X Tang, Z Du, W Kelly, Z Huang. An In-vitro Study of the Expansion and Transcriptomics of CD4+ and CD8+ Naïve and Memory T Cells Stimulated by IL-2, IL-7 and IL-15. Cells, 11(10), 1701, 2022. 
  9. R Hanes, Z Huang. Investigation of Antimicrobial Resistance in Listeria monocytogenes from Historical Isolate Data. International Journal of Environmental Research and Public Health, 19(9), 5506, 2022.
  10. F Zhang, J Graham, T Zhai, Y Liu, Z Huang. Discovery of MurA Inhibitors as Novel Antimicrobials through an Integrated Computational and Experimental Approach. Antibiotics, 11, 528, 2022.
  11. X Zhao, H Zhang, Z Huang. A Continuous Bayesian Model for the Simulation of COVID-19 Epidemic Dynamics. Biology, 11(2), 190, 2022.
  12. F Zhang, B Macshane, R Searcy, Z Huang. Mathematical Models for Cholesterol Metabolism and Transport. Processes, 10(1), 155, 2022.
  13. T Zhai, F Zhang, S Haider, D Kraut, Z Huang. An Integrated Computational and Experimental Approach to Identifying Inhibitors for SARS-CoV-2 3CL Protease. Frontiers in Molecular Biosciences, 8:661424, 2021.
  14. K O’Donnell, S Krishnathu, R Bhatia, Z Huang William Kelly. Evaluation of two-species binding model with anion-exchange membrane chromatography to predict pressure buildup during recovery of virus. Chemical Engineering Science, 237(29), 116535, 2021.
  15. C Copolla*, B Hopkins*, S Huhn, Z Du, Z Huang**, W Kelly**. Investigation of the Impact from IL-2, IL-7, and IL-15 on the Growth and Signaling of Activated CD4+ T Cells. International Journal of Molecular Sciences, 21(21), 7814, 2020 (* - equal contribution; ** - joint corresponding authors).  
  16. M Ceruso, J Clement, M Todd, F Zhang, Z Huang, T Pepe, A Aniello, Y Liu. The inhibitory effect of plant extracts on growth of the foodborne pathogen, Listeria monocytogenes. Antibiotics, 9(6): 319, 2020. 
  17. F Zhang, T Zhai, S Haider, Y Liu, Z Huang. Synergistic Effect of Chlorogenic Acid and Caffeic Acid with Fosfomycin in Growth Inhibition of a Resistant Listeria monocytogenes Strain. ACS Omega, 5(13): 7537–7544, 2020 (selected as the journal cover image).
  18. J. Geng, K. Chen, N. Wang, S. Ling, M. Guo and Z. Huang. Comparison of R and MATLAB Simulink in Educating High School Students with ODE Modeling Skills. Chemical Engineering Education, 53(2), 121-129, 2019.  
  19. B. Hopkins, Y. Pan, M. Tucker, Z. Huang. A Model-Based Investigation of Cytokine Dynamics in Immunotherapies. Processes, 7, 12, 2019. 
  20. G. Pawlish, K. Spivack, A. Gabriel, Z. Huang and N. Comolli. Chemotherapeutic loading via tailoring of drug-carrier interactions in poly (sialic acid) micelles. AIMS Bioengineering, 5(2), 106–132, 2018
  21. X. Li, K. Scott, W.J. Kelly, Z. Huang. Development of a Computational Fluid Dynamics Model for Scaling-up Ambr bioreactors. Biotechnology and Bioprocess Engineering, 1-16, https://doi.org/10.1007/s12257-018-0063-5, 2018
  22. W. Kelly, S. Veigne, X. Li, S. Subramanian, Z. Huang, E. Schaefer. Optimizing Performance of Semi-Continuous Cell Culture in an Ambr15TM Microbioreactor Using Dynamic Flux Balance Modelling. Biotechnology Progress, 34(2), 420-431, 2017
  23. N. Ribaudo, X. Li, B. Davis, T.K. Wood, Z. Huang. A Genome-Scale Modeling Approach to Quantify Biofilm Component Growth of Salmonella Typhimurium. Journal of Food Science, 82(1), 154-166, 2017.
  24. X. Li, Z. Huang. An Inverted Classroom Approach to Educate MATLAB in Chemical Process Control. Education for Chemical Engineers, 19, 1-12, 2017. 
  25. Z. Xu, N. Ribaudo, X. Li, T.K. Wood, Z. Huang. A Genome-Scale Modeling Approach to Investigate the Antibiotics-Triggered Perturbation in the Metabolism of Pseudomonas aeruginosa. IEEE Life Science Letters, 2(3), 39-42, 2016.
  26. X. Li, Y. Liu, Q. Jia, V. LaMacchia, K. O'Donoghue, Z. Huang. A Systems Biology Approach to Investigate the Antimicrobial Activity of Oleuropein. Journal of Industrial Microbiology & Biotechnology, 43(12), 1705-1717, 2016.
  27. X. Li, N. Ribaudo, Z. Huang, A Kinetic Model-Based Approach to Identify Malfunctioned Components in Signal Transduction Pathways from Artificial Clinical Data. BioMed Research International, 415083, 1-19, 2015.
  28. Q. Ping, Z. Huang, C. Dosoretz, Z. He. Integrated Experimental Investigation and Mathematical Modeling of Brackish Water Desalination and Wastewater Treatment in Microbial Desalination Cells. Water Research, 77, 13-23, 2015.
  29. Z. Xu, S. Islam, T.K. Wood, Z. Huang. An Integrated Modeling and Experimental Approach to Study the Influence of Environmental Nutrients on Biofilm Formation of Pseudomonas aeruginosa. BioMed Research International, 506782, 1-12, 2015.
  30. K. Lee, N. Comolli, W.J. Kelly, Z. Huang. MATLAB Based Teaching Modules in Biochemical Engineering. Chemical Engineering Education, 49(2), 95-100, 2015.
  31. Z. Xu, J.O.M. Karlsson, Z. Huang. Modeling the Dynamics of Acute Phase Protein Expression in Human Hepatoma Cells Stimulated by IL-6. Processes, 3(1), 50-70, 2015.  
  32. Q. Ping*, C. Zhang*, X. Chen, B. Zhang, Z. Huang**, and Z. He**. A Mathematic Model of Dynamic Behavior of Microbial Desalination Cells. Environmental Science & Technology, 48, No. 21, pp. 13010–13019, 2014 (*equal contribution; ** joint corresponding authors)
  33. Z. Xu, X. Fang, T.K. Wood, Z. Huang. A Systems-Level Approach for Investigating Pseudomonas aeruginosa Biofilm Formation. PLoS One, 8(2): e57050, 2013.
  34. W. Kelly, G. Kamguia, P. Mullen, A. Ubiera, K. Goklen, Z. Huang, G. Jones. Using a Two Species Competitive Binding Model to Predict Expanded Bed Breakthrough of a Recombinant Protein Expressed in a High Cell Density Fermentation. Biotechnology and Bioprocess Engineering, 18, No. 3, pp. 546-559, 2013.
  35. O. Donaldson, Z. Huang, N. Comolli. An Integrated Experimental and Modeling Approach to Propose Biotinylated PLGA Microparticles as Versatile Targeting Vehicles for Drug Delivery. Progress in Biomaterials, 2:3, 2013.
  36. Z. Huang, Y. Chu, and J. Hahn. Computing Transcription Factor Distribution Profiles from Green Fluorescent Protein Reporter Data. Chemical Engineering Science , 68, No. 1, pp. 340-354, 2012
  37. Y. Chu, Z. Huang, and J. Hahn. Global Sensitivity Analysis Procedure Accounting for Effect of Available Experimental Data . Industrial & Engineering Chemistry Research 50, No. 3, pp. 1294-1304, 2011
  38. C. Moya*, Z. Huang*, P. Cheng, A. Jayaraman, and J. Hahn. Investigation of IL-6 and IL-10 Signaling in Steatosis via Mathematical Modeling. IET Systems Biology, 5, No. 1, pp. 15-26, 2011 (*equal contribution)
  39. Z. Huang*, C. Moya*, J. Hahn, and A. Jayaraman. Using the Tet-On System to Develop a Procedure for Extracting Transcription Factor Activation Dynamics. Molecular Biosystems 6, pp. 1883-1889, 2010 (*equal contribution)
  40. Z. Huang, Y. Chu, B. Cunha, and J. Hahn. Generalization of a Procedure for Computing Transcription Factor Profiles. IET Systems Biology 4, No. 2, pp. 108-118, 2010
  41. R. Kaunas, Z. Huang, and J. Hahn. A Kinematic Model Coupling Stress Fiber Dynamics with JNK Activation in Response to Matrix Stretching. Journal of Theoretical Biology 264, No.2, pp. 593-603, 2010
  42. Z. Huang, Y. Chu, and J. Hahn. Model Simplification Procedure for Signal Transduction Pathway Models: An Application to IL-6 Signaling. Chemical Engineering Science 65, No.6, pp. 1964-1975, 2010
  43. Z. Huang and J. Hahn. Fuzzy Modeling of Signal Transduction Networks. Chemical Engineering Science 64, No. 9, pp. 2044-2056, 2009
  44. Y. Chu, Z. Huang, and J. Hahn. Improving Prediction Capabilities of Complex Dynamic Models via Parameter Selection and Estimation. Chemical Engineering Science 64, No.19, pp. 4178-4185, 2009
  45. Z. Huang, F. Senocak, A. Jayaraman, and J. Hahn. Integrated Modeling and Experimental Approach for Determining Transcription Factor Concentrations from Fluorescent Reporter Profiles. BMC Systems Biology, 2 (64), 2008 
  46. J. Brewer, Z. Huang, A.K. Singh, M. Misra, and J. Hahn. Sensor Network Design via Observability Analysis and Principal Component Analysis. Industrial & Engineering Chemistry Research 46, No.24, pp. 8026-8032, 2007

 

Book Chapters

  1. Z. Huang, Q. Jia and T.K. Wood. Use of Omic Technologies for in Silico Modeling to UnderstandE. coliPhysiology and to Develop Novel therapeutics. Pathogenic E. coli: Evolution, Omics, Detection, and Control, Caister Academic Press/ Horizon Scientific Pres, in press, 2017.
  2. Z. Huang and J. Hahn. Algorithms for Analysis of Fluorescence Microscopy Images for Studying Signal Transduction Pathways and Computation of Transcription Factor Profiles. Methods in Bioengineering, Artech House, Boston, Massachusetts, pp.33-56, 2009.

Selected Peer-reviewed Conference Papers in Proceedings

  1. R Forte, R Goehring, M Fogliano, Z Huang. Statistical Investigation of the Relationship Between Mental Health & Marijuana Use from NHANES Database. 2024 ASEE Mid-Atlantic Section Spring Conference. The George Washington University, 2024. (Best Poster Award)
  2. Z Huang.Develop the Mindset of Engineering for One Planet in Chemical Process Control. 2023 ASEE Annual Conference & Exposition, Baltimore, MD, 2023.
  3. A Liang, A Chan, J Chen, S Hu, Z Huang. A STEM Outreach Project for High School Students: Optimization of the Design Parameters for the Antibiotic Manufacturing Process Using R. Penn State Harrisburg, PA, 2022.
  4. E Krass, T Zhai, Z Huang. Identification of Apolipoprotein E4 inhibitors for Alzheimer’s Disease Therapy through a Large-Scale Virtual Screening. Foundations of Systems Biology in Engineering 2022 (FOSBE 2022), Boston, MA.
  5. M Dugoni, N Kaye, Z Huang. Investigation of Dominant Daily Uptake Factors on Gut Health from Samples in the Database of National Health and Nutrition Examination Survey. 2022 ASEE Mid-Atlantic Section Spring Conference. New Jersey Institute of Technology, NJ, 2022.
  6. Z Huang. Examples of Virtual Teaching Implementations in Chemical Process Control during the COVID-19 Lockdown. 2021 ASEE Mid-Atlantic Section Fall Conference. Virtually Hosted by the section, 2021.
  7. Z Huang. Design a Modeling STEM Outreach Project to Promote High-School Students' Interest in Math-Related Research. 2021 ASEE Mid-Atlantic Section Spring Conference, Villanova University, PA, 2021.
  8. S Nersesov, Z Huang. Work in Progress: Development of MATLAB Instructional Modules for Engineering Students. 2019 ASEE Annual Conference & Exposition, Tampa, Florida, 2019. 
  9. B. Hopkins, M. Tucker, Y. Pan,  N. Fang, Z. Huang. A Model-Based Investigation of Cytokine Storm for T-Cell Therapy. Foundations of Systems Biology in Engineering 2018 (FOSBE 2018), Chicago, IL, pp. 76–79.
  10. P. Guo, K. Yuan, Z. Huang. Develop Web-based Modules to Educate High-School Students in Studying Microbial Fuel Cell Dynamics. 2017 ASEE Mid Atlantic Section Spring Conference, Baltimore, Maryland, April 2017.
  11. Z. Xu, N. Ribaudo, L. Huang, Z. Huang. A Systems Biology Approach to Study the Uncertainty in the Growth Rate of Escherichia coli. Foundations of Systems Biology in Engineering 2015 (FOSBE 2015), Boston, MA, 2015.
  12. Z. Xu, N. Ribaudo, Z. Huang. A Genome-Scale Modeling Approach to Investigate the Antibiotics-Triggered Perturbation in the Metabolism of Pseudomonas aeruginosa. Foundations of Systems Biology in Engineering 2015 (FOSBE 2015), Boston, MA, 2015.
  13. J.J. Elmer, N.K. Comolli, W.J. Kelly, Z. Huang. “Preparation of Biology Review and Virtual Experiment/Training Videos to Enhance Learning in Biochemical Engineering Courses,” 2015 ASEE Annual Conference and Exposition, Seattle, Washington, June 2015.
  14. Z. Xu and Z. Huang.Drug Target Screening for Acute Phase Response from Kinetic Models. 54th Annual Conference of the Society of Instrument and Control Engineers of Japan (SICE), Hangzhou, China, 2015.
  15. X. Li and Z. Huang. Development of a Model-Based Inference Approach to Detect Malfunctioned Components in Biological Systems from Clinical Data. 54th Annual Conference of the Society of Instrument and Control Engineers of Japan (SICE), Hangzhou, China, 2015.
  16. C. Ekaputra, and Z. Huang. Educating High School Students in Process Simulation and Control with a Simulink-Based Controller Design for Microbial Fuel Cells. ASEE-SE 2015, University of Florida, Gainesville, FL, 2015.
  17. Z. Xu, X. Fang, T.K. Wood, Z. Huang. Modeling Framework for investigating the Influence of Amino Acids on the Planktonic-Biofilm Transition of Pseudomonas aeruginosa. The International Federation of Automatic Control (IFAC) World Congress 2014, Cape Town, South Africa, 2014.
  18. Z. Xu, X. Fang, T.K. Wood, Z. Huang. Gene target identification for biofilm-associated pathogens: an application to Pseudomonas aeruginosa . Proceedings of the 2013 American Control Conference, Washington, DC, pp. 3765 - 3770.
  19. Z. Huang, Y. Chu, and J. Hahn. Derivation of Simplified Signal Transduction Pathway Models: Application to IL-6 Signaling. Proceedings of the 2010 American Control Conference, Baltimore, Maryland, pp. 5131-5136 (Invited Presentation).
  20. Z. Huang, C. Moya, P. Cheng, A. Jayaraman, and J. Hahn. In Silico Investigation of IL-6 and IL-10 Signaling in Steatosis. Proceedings Foundations of Systems Biology in Engineering 2009 (FOSBE 2009), Denver, Colorado, pp. 28-31.
  21. Z. Huang, Y. Chu, and J. Hahn. Derivation of a Reduced IL-6 Signal Transduction Model. Proceedings Foundations of Systems Biology in Engineering 2009 (FOSBE 2009), Denver, Colorado, pp. 32-35.
  22. Z. Huang, F. Senocak, A. Jayaraman, and J. Hahn. Solution of Inverse Problems for Obtaining Protein Concentrations from Fluorescent Microscopy Images. Proceedings of the 2009 American Control Conference (ACC 2009), St. Louis, Missouri, pp. 1688-1693.
  23. Z. Huang and J. Hahn, Fuzzy Modeling of Signal Transduction Networks. Proceedings of the 2008 IFAC World Congress, Seoul, Korea, pp. 15867-15872 (Invited Presentation).
  24. Z. Huang, Y. Chu, F. Senocak, A. Jayaraman, and J. Hahn, Model Update of Signal Transduction Pathways in Hepatocytes based upon Sensitivity Analysis. Proceedings Foundations of Systems Biology 2007 (FOSBE 2007), Stuttgart, Germany, pp. 45-50 (Plenary Presentation).

Selected Conference Presentations excluding the ones with proceedings

  1. T Zhai, Z Song, E Warga, J Elmer, Z Huang. Investigation of Small Molecule Inhibitors for OAS 1 to Enhance Gene Therapy. AIChE 2023 Annual Meeting, Orlando, FL
  2. R Hanes, F Zhang, Z Huang. Investigation of Interaction of Stress Response, Virulence, and Antibiotic Resistance in Listeria monocytogenes through Protein Network Analysis. AIChE 2023 Annual Meeting, Orlando, FL
  3. E Krass, T Zhai, Z Huang. Identification of Apolipoprotein E4 Inhibitors for Alzheimer’s Disease Therapy through Large-Scale Virtual Screening. AIChE 2022 Annual Meeting, Phoenix , AZ
  4. F Zhang, J Graham, T Zhai, Y Liu, Z Huang. Discovery of Inhibitors for Mura Protein as Antimicrobials through an Integrated Computational and Experimental Approach. AIChE 2022 Annual Meeting, Phoenix , AZ
  5. T Zhai, F Zhang, S Haider, Y Liu, Z Huang. An Integrated Computational and Experimental Approach to Identifying Inhibitors for SARS-CoV-2 3CL Protease. AIChE 2021 Annual Meeting, Boston, MA (virtual)
  6. T Zhai, F Zhang, Z Huang. Discovery of CDK8 Inhibitors By Novel Docking Algorithm with CDK8-Targeted Scoring Function. AIChE 2020 Annual Meeting, San Francisco, CA (virtual)
  7. T Zhai, F Zhang, S Haider, Y Liu, Z Huang. A Computational Approach to Identifying Synergistic Compounds for Treating Antimicrobial-Resistant Pathogens. AIChE 2020 Annual Meeting, San Francisco, CA (virtual)
  8. M Fan, J Shao, R Jin, G Hu, L Zhang, Z Huang. A Video-Based Self-Study Outreach Modeling Project for Future Chemical Engineers. AIChE 2020 Annual Meeting, San Francisco, CA (virtual)
  9. B. Brooks, C. Coppolla, W. Kelly, Z. Huang. Analysis of Transcriptomic Data for CD4+ Naïve T Cells Stimulated By Cytokine. AIChE 2020 Annual Meeting, San Francisco, CA, 2020.
  10. F. Zhang, T. Zhai, S. Haider, Y. Liu, Z. Huang. A Computational Approach to Identifying Synergistic Compounds for Treating Antimicrobial-Resistant Pathogens. AIChE 2020 Annual Meeting, San Francisco, CA, 2020.  
  11. M. Fan, J. Shao, R. Jin, G. Hu, L. Zhang, Z. Huang. A Video-Based Self-Study Outreach Modeling Project for Future Chemical Engineers. AIChE 2020 Annual Meeting, San Francisco, CA, 2020. 
  12. F. Zhang, T. Zhai,  S. Haider, Y. Liu, Z. Huang. Virtual Screening of Synergistic Plant Compounds with Antibiotics Against Drug Resistance Listeria Monocytogenes. Biomedical Engineering Society (BMES) Annual Conference, 2019, Philadelphia, PA. 
  13. B. Hopkins, M. Tucker, Y. Pan and Z. Huang. A Model-Based Investigation of Cytokine Storm for T-Cell Therapy. AIChE 2018 Annual Meeting, Pittsburgher, PA.
  14. N. Zhang, E. Liu, A. Tang, M. Ye, K. Wang, Z. Huang. Data-driven Analysis of Antimicrobial Resistance of Foodborne Pathogens in Six States of USA. AIChE 2018 Annual Meeting, Pittsburgher, PA.
  15. J. Geng, K. Chen, N. Wang, S. Ling, M. Guo, and Z. Huang. Comparison of R and MATLAB Simulink in Educating High School Students with ODE Modeling Skills. 2018 ASEE Mid Atlantic Section Spring Conference, Washington DC, 2018.
  16. R. Hanes, Z. Huang. Application of the Genome-Scale Modeling Approach to Exoelectrogenic Microorganisms in Microbial Fuel Cells. AIChE 2017 Annual Meeting, Minneapolis, MN.
  17. K. Chen, J. Geng, S. Ling, N. Wang, M. Guo, and Z. Huang. Comparison of Web-Based and Lecture-Based Training Approaches to Educate High-School Students with Simulink Modeling Skills. AIChE 2017 Annual Meeting, Minneapolis, MN.
  18. X. Li, R. Ferrari, Z. Huang. Development of a 3D Computational Fluid Dynamics Model for Microbial Fuel Cells. AIChE 2017 Annual Meeting, Minneapolis, MN.
  19. X. Li, Z. Huang. “Educate Matlab in Chemical Process Control Using Flipped-Classroom Modules,” AIChE 2016 Annual Meeting, San Francisco, CA.
  20. X. Li, Y. Liu, Q. Jia, V. LaMacchia, K. O'Donoghue, Z. Huang. “A Systems-Biology Approach to Investigate the Antimicrobial Activity of Oleuropein,” AIChE 2016 Annual Meeting, San Francisco, CA.
  21. X. Li and Z. Huang. “Educate MATLAB in Chemical Process Control Using an Inverted-Classroom Approach,” STEM Education section, 2016 International Education Conference, Orlando, FL, 2016.
  22. Z. Xu, N. Ribaudo, Z. Huang. Investigation of the Antibiotics-Triggered Perturbation in the Metabolism of Pseudomonas aeruginosa via a Metabolic Modeling Approach. American Institute of Chemical Engineering Annual Meeting, Salt Lake City, UT, Nov 2015.
  23. X. Li, N. Ribaudo, Z. Huang. A Kinetic Model-Based Approach to Identify Malfunctioned Components in Signal Transduction Pathways from Data. American Institute of Chemical Engineering Annual Meeting,  Salt Lake City, UT, Nov 2015.
  24. Q. Ping, C. Zhang, X. Chen, B. Zhang, Z. Huang, and Z. He. Development of a Mathematical Model for Microbial Desalination Cells. American Institute of Chemical Engineering Annual Meeting, Atlanta, GA, Nov 2014.
  25. K. Lee, Z. Huang. A Systems Biology Approach to Quantify the Metabolism of Escherichia Coli for Generating 3-Hydroxypropionic Acid From Glycerol. American Institute of Chemical Engineering Annual Meeting, San Francisco, CA, Nov 2013.
  26. Z. Xu, X. Fang, T.K. Wood, and Z. Huang. A Systems Biology Approach for Investigation of the Influence of Environmental Nutrients On the Biofilm Formation of P. Aeruginosa. American Institute of Chemical Engineering Annual Meeting, San Francisco, CA, Nov 2013.
  27. C. Zhang, N. Giraldo-Wingler, Z. Xu, and Z. Huang. Modeling the Dynamics of Acute Phase Proteins During the Heat Shock Response. American Institute of Chemical Engineering Annual Meeting, San Francisco, CA, Nov 2013.
  28. Z. Xu, X. Fang, T.K. Wood, and Z. Huang. A systems biology approach to investigate environmental infl uence on Pseudomonas aeruginosa biofilm formation. 2nd International Conference and Exhibition on Metabolomics & Systems Biology, Chicago, IL, April 2013.
  29. Z. Xu, F. Xin, T.K. Wood, and Z. Huang. A Systems-level Analysis Approach for Identifying Genetic Targets to Treat Biofilm-forming Pathogens: an Application to Pseudomonas aeruginosa. AIChE 2012 Annual Meeting, Pittsburgher, PA.
  30. J.O.M. Karlsson, Z. Xu, A. Plakkat, H. Li, and Z. Huang. Modeling Dynamics of Acute Phase Protein Expression in HepG2 Cells Stimulated by IL-6. AIChE 2012 Annual Meeting, Pittsburgher, PA.
  31. R. Kaunas, Z. Huang, and J. Hahn. Derivation of a Kinematic Model Coupling Stress Fiber Dynamics with JNK Activation In Response to Matrix Stretching. AIChE 2011 Annual Meeting, Minneapolis, MN.
  32. Z. Huang, Y. Chu, L. Bansal, and J. Hahn, Derivation of Transcription Factor Distribution Profiles From Green Fluorescent Protein Reporter Data. AIChE 2010 Annual Meeting, Salt Lake City, Utah (Invited Presentation).
  33. Y. Chu, Z. Huang, M. Serpas, and J. Hahn, Global Sensitivity Analysis Procedure Accounting for Effect of Available Experimental Data. AIChE 2010 Annual Meeting, Salt Lake City, Utah.
  34. C. Moya, Z. Huang, J. Hahn, and A. Jayaraman. Quantitative Determination of Transcription Factor Profiles From Reporter Data. AIChE 2010 Annual Meeting, Salt Lake City, Utah.
  35. Z. Huang, C. Moya, P. Cheng, A. Jayaraman, and J. Hahn. Mathematical Modeling of IL-6 and IL-10 Signal Transduction in Steatosis. AIChE 2009 Annual Meeting, Nashville, Tennessee.
  36. Z. Huang, Y. Chu, and J. Hahn. Derivation of Reduced Models for Signal Transduction Pathways Via Sensitivity and Observability Analysis. AIChE 2009 Annual Meeting, Nashville, Tennessee.
  37. Z. Huang, F. Senocak, A. Jayaraman, and J. Hahn,Quantitative Measurement Technique for Transcription Factor Profiles. AIChE 2008 Annual Meeting, Philadelphia, Pennsylvania.
  38. Y. Chu, Z. Huang, and J. Hahn. Analysis Procedure for Signal Transduction Pathways by Clustering Parameters According to their Sensitivity Profiles. AIChE 2008 Annual Meeting, Philadelphia, Pennsylvania.
  39. Y. Chu, Z. Huang, and J. Hahn. Sensitivity Analysis for Parameter Estimation of Signal Transduction Networks. SIAM Conference on the Life Sciences, Montreal, Canada (Invited Presentation).
  40. Z. Huang and J. Hahn. Development and Comparison of Algorithms for Analysis of Fluorescent Images for Studying the Dynamics of Signal Transduction Pathways. AIChE 2007 Annual Meeting, Salt Lake City, Utah.