Department of Bioengineering:

B.S. (1962) Christian Brothers College

M.S. (1965) Case Western University

Ph.D. (1967) Case Western University

Biological Systems Modeling, Bioelectric Phenomena, Analysis of Nonlinear Dynamic Systems

Email: jwc@rice.edu
Phone: 713-348-3597
Office: Abercrombie Bldg. A224

John W. Clark Jr

John Clark, Jr.
Professor in Electrical and Computer Engineering

Research Interests: Electrophysiology (neural, cardiac); mathematical modeling of biological systems; signal processing methods applied to biological systems; nonlinear system dynamics; electromagnetic field theory.

Professor John Clark has participated in the field of bioengineering for more than 30 years. His research involves the application of mathematical and engineering techniques to the fields of neuroscience and cardipulmonary systems.

Current research interests include the development of quantitative mathematical models of single neurons and cardiac cells, and their utilization in multicellular networks (e.g. ring-type locomotion networks, cardiac reflexes such as the baroreflex and neural circuits for the control of respiration).

Projects involving medical devices and instrumentation are also under way in the areas of cardiovascular system analysis and pulmonary function testing. Professor Clark is one of the leaders in bioengineering in the Houston area and was instrumental in forming the Houston Society for Engineering in Medicine and Biology, which has hosted the annual Houston Conference on Biomedical Engineering Research for the past 19 years.

Professor Clark is a Founding Fellow of the American Institute of Engineering in Medicine and Biology.

Professor John Clark has participated in the field of bioengineering for more than 30 years. He is one of the leaders in bioengineering in the Houston area and was instrumental in forming the Houston Society for Engineering in Medicine and Biology, which has hosted the Annual Houston Conference on Biomedical Engineering Research for the past 21 years. He is a Founding Fellow of the American Institute of Engineering in Medicine and Biology, and is currently President of the IEEE Society for Engineering in Medicine and Biology (EMBS).

Research is centered on the area of Computational Biology and Medicine. Dr. Clark's Laboratory develops detailed mechanistic models of biological processes on several levels of scale: from molecular, cellular and tissue modeling to the development of interactive multiple-organ system models. Examples of cellular models include cardiac cell and neuron modeling with mechanistic ion channel descriptions and modulation via second messengers. At the multiple-organ level, development of large-scale models of the cardiovascular and pulmonary systems, as they interact and are controlled by the central nervous system.

Research interests are centered in the area of Computational Biology and Medicine at several levels of scale: from molecular, cellular and tissue modeling to large scale modeling at the multiple organ level,including development of integrative models of the cardiovascular and pulmonay systems as they are controlled by the central nervous system.

Selected Publications

Abstract

Qiao F, T. Pan, J.W. Clark Jr and O.R. Mawlawi, Region of Interest Motion Compensation for PET Image Reconstruction, Phys. Med. Biol. 52(10): 2675-89, 2007.

Ha RR, Wang D, Zwischenberger JB, Clark JW Jr. Hemodynamic Analysis and Design of a Paracorporeal Artificial Lung Device, Cardiovascular Engineering 6(1):10-29, 2006

Article

Yue, Y., M.M. Croitoru, A. Bidani, J.B. Zwischenberger and J.W. Clark, Jr., Nonlinear Multiscale Wavelet, Diffusion for Speckle Suppression and Edge Enhancement in Ultrasound Images,� IEEE Trans. Medical Imaging, 25(3): 297-311, 2006.

F. Qiao, T. Pan, J.W Clark Jr. and O.R. Mawlawi,A Motion-incorporated Reconstruction Method for Gated PET Studies, Phys. Med. Biol. 51:37693783, 2006

Luo, C., J.W. Clark Jr., T.A. Heming, A. Bidani, A Macrophage Cell Model for pH and Volume Regulation, J. Theoretical Biology,238:449 463, 2006.

Yang, J., J.W. Clark Jr., R.M. Bryan, and C.S. Robertson "Mathematical Modeling of the Nitric Oxide/cGMP Pathways in the Vascular Smooth Muscle Cell." Amer. J. Physiology, 289 (2005): H886-H897.

Ha, R.R., J. Qian , D.L. Ware, J.B. Zwischenberger, A. Bidani, and J.W. Clark Jr. "An integrative cardiovascular model of the standing and reclining sheep." Cardiovascular Engineering, 5(2) (2005): 53-76.

Amini B., A. Bidani, J.B. Zwischenberger, and J.W. Clark, Jr. "A Model of the Pacemaking Neuron of the Respiratory Central Pattern Generator." IEEE Transactions on Neural Systems and Rehabilitation Engineering, 13(2) (2005): 120-124.

Luo, C., J.W. Clark Jr., T.A. Heming, A. Bidani "A Macrophage Cell Model for pH and Volume Regulation." J. Theoretical Biology (2005).(In Press)

Conference paper

F. Qiao, T. Pan, J.W. Clark, Jr. and O. Mawlawi, "Region of Interest Motion Compensation in PET Image Reconstruction," 2006 Nuclear Science Symposium, Medical Imaging Conference and 15th International Room Temperature Semiconductor Detector Workshop, October 29 Nov. 4, 2006, San Diego, CA. Paper M11-319 on CD-ROM of Proceedings.

K. Lu, J.W. Clark, F.H. Gorbel, C.S. Robertson, D.L. Ware, J.B. Zwischenberger, and A. Bidani "Cerebral Autoregulation and Gas Exchange Studied Using a Human Cardiopulmonary Model." Proc. 25th Annual International Conference of IEEE/EMBS, Cancun, Mexico, 17-21 September, 2003, Paper 1.7.1.5: 3 pages.

L. Sun, J.W. Clark Jr., J-S. Fan, and P.T. Palade "A Mathematical Model of Calcium-release and Calcium Balance During Systole in Rat Ventricular Myocytes." Proc. 25th Annual International Conference of IEEE/EMBS, Cancun, Mexico, 17-21 September, 2003, Paper 1.1.1.7: 3 pages.

K.N. Daniel, L. Sun, K. Spitzer, W.R. Giles, J. Clark, Jr. "Mathematical Model of the Rabbit Ventricular Myocyte." Proc. 2nd Joint EMBS-EMBS Conference, 23-26 October, 2002, Houston, TX, 6.2.1.2 (02/10/23): 2 pages.

L. Sun, C.S. Martin, J.L. Lacy, N. Nayak , J. Clark, Jr. "Motion Correction in Treadmill First-pass Radionuclide Angiography." Proceedings 2nd Joint EMBS-EMBS Conference, Houston, TX, 23-26 October,, 5.1.1.1 (02/10/23): 2 pages.

C. Luo, T.A. Heming, A. Bidani, J. Clark, Jr. "Mathematical Analysis of Alveolar Macrophage pH Regulation." Proceedings 2nd Joint EMBS-EMBS Conference, Houston, TX, 23-26 October,, 6.3.7.10 (02/10/23-6): 2 pages.

J. Yang, R.M. Bryan, C. Robertson, J. Clark, Jr. "A Mechanistic Model of the Myogenic Response." Proceedings 2nd Joint EMBS-EMBS Conference, Houston, TX, 23-26 October,, 14.4.1.3 (02/10/24): 2 pages.

C. Luo, A. Bidani, J. Clark, Jr. "Development of a GUI-based Platform for Analysis of Alveolar Cell pH and Ion Regulation." Proceedings 2nd Joint EMBS-EMBS Conference, Houston, TX, 23-26 October,, 14.1.2.2 (02/10/24): 2 pages.

A. Bidani, C. Luo, T.A. Heming, J.Clark, Jr. "Ion Transport in Lung Cells: From Cellular Homeostasis to Pulmonary Gas Exchange." Proceedings 2nd Proc. 2nd Joint EMBS-EMBS Conference, Houston, TX, 23-26 October,, 6.3.3.1 (02/10/24): 2.

K. Lu, Ghorbel, F., A. Bidani, D.L. Ware, K. Lu, Ghorbel, F., A. Bidani, D.L. Ware, Clark, J. Clark, Jr.. "A Closed-loop Model of Human Gas Exchange." Proceedings 2nd Joint EMBS-EMBS Conference, Houston, TX, 23-26 October,, 6.3.7.6 (02/10/25): 2 pages.

B. Amini, A. Bidani, J.B. Zwischenberger, J.Clark, Jr. "A Model of the Rat Phrenic Motor Neuron." Proceedings 2nd Joint EMBS-EMBS Conference, Houston, TX, 23-26 October,, 6.3.5.2 (02/10/25): 2 pages.

J. Qian, K. Lu, Ghorbel, F., A. Bidani, J. Zwischenberger, J.Clark, Jr. "A Closed-loop Model of the Ovine Cardiovascular System." Proceedings 2nd Joint EMBS-EMBS Conference, Houston, TX, 23-26 October,, 6.4.3.5 (02/10/26): 2 pages.

R. Ha, J. Qian, D. Wang, J.B. Zwischenberger, A. Bidani, J.W. Clark Jr. "A Closed-Loop Model of the Ovine Cardiovascular System." Proc. 26th Annual Conference of the IEEE Engineering in Medicine and Biology Society (1-5 Sep 04): paper 10.3.5.6, pp 3781-3784.

B. Amini, A. Bidani, J.B. Zwischenberger and J.W. Clark Jr. "A Model of the Respiratory Central Pattern Generator." Proc. 26th Annual Conference of the IEEE Engineering in Medicine and Biology Society (1-5 Sep 04): paper 11.7.1.5, pp 4580-4583.

Y. Yue, M.M. Croitoru, J.B. Zwischenberger, J.W. Clark, Jr. "Ultrasonic Speckle Suppression Using Robust Nonlinear Wavelet Diffusion for LV Volume Quantification." Proc. 26th Annual Conference of the IEEE Engineering in Medicine and Biology Society (1-5 Sep 04): paper 11.7.1.5, pp 4580-4583.

Other

Lechner, H.A., Baxter, D.A., Clark, J.W., and Byrne, J.H. "Bistability and its regulation by serotonin in the endogenously bursting neuron R15 in Aplysia." . J. Neurophysiol, 75 (1996): 957-962.

A. Nygren, C. Fiset, L. Firek, J.W. Clark, D. S. Lindblad, R.B. Clark, and W.R. Giles "A Mathematical Model of An Adult Human Atrial Cell: The Role of K+ Currents in Repolarization." Circulation Research, 82 (1998): 63-81.

J.B. Olansen, F. Ghorbel, J.W. Clark Jr., D. Deyo, J.B. Zwischenberger, and A. Bidani "An Automated LabVIEW-Based Data Acquisition System for Analysis of Pulmonary Function." Journal of Clinical Engineering, 23 (1998): 279-287.

R.0. Dror, C.C. Canavier, R.J. Butera, J.W. Clark and J.H. Byrne "A Mathematical Criterio Based on Phase Response Curves for Stability in a Ring of Coupled Oscillators." Biological Cybernetics.

C. Luo, J.W. Clark, A.A. DeFranceschi, C.C. Canavier, D.A. Baxter and J.H. Byrne "Multimodal behavior in a biologically inspired gait generation circuit." Journal of Computational Neuroscience (submitted for publication).

K.D. Alfrey, J.H. Schild, J.W. Clark, Jr., D.L. Kunze and M.C. Andresen "Modeling the ionic mechanisms of rat arterial baroreceptor mechanotransduction: II. Dynamic characteristics." American Journal of Physiology (submitted for publication).

K.D. Alfrey, J.H. Schild, J.W. Clark, Jr., D.L. Kunze and M.C. Andresen "Modeling the ionic mechanisms of rat arterial baroreceptor mechanotransduction: I. Static characteristics." American Journal of Physiology (submitted for publication).

V.L. Lowes, A. Nygren, R.B. Clark, F. Eriksson, J.W. Clark and W.R. Giles "K+ accumulation during activation of K+ currents in Xenopus Oocytes." Biophysical Journal (submitted for publication).

K. Lu, J.W. Clark, F.H. Gorbel, D.L. Ware, and A. Bidani "An Integrated Model of the Human Cardiopulmonary System." Proc. 23rd Annual Conference , IEEE/EMBS, Istanbul, Turkey (25-28 October, 2001): 3 pages.

J. Yang, J.W. Clark, R. Bryan, and C. Robertson "A Cellular Based Model of the Myogenic Response in Isolated Cerebral Arteries." Proc. 23rd Annual Conference , IEEE/EMBS, Istanbul, Turkey (25-28 October, 2001): 3 pages.

L. Sun, J.W. Clark, J-S. Fan, and P.T. Palade ""Ca2+ -induced Calcium Release in a Rat Ventricular Cell: A Model Study." Proc. 23rd Annual Conference , IEEE/EMBS, Istanbul, Turkey (25-28 October, 2001): 2 pages.

J.W. Clark "The Origin of Biopotentials." Medical Instrumentation: Application and Design, 3rd edition (1998): 121-182.

R.O. Dror, C.C. Canavier, R.J. Butera, J.W. Clark and J.H. Byrne "A Mathematical Criterion Based on Phase Response Curves for Stability in a Ring of Coupled Oscillators." Biological Cybernetics, 80 (1999): 11-23.

Niranjan, S.C., Bidani, A., Ghorbel, F., Zwischenberger, J.B. and Clark Jr., J.W. "Analysis of Inspiratory Waveforms on Pulmonary Blood Flow and Gas Exchange During Mechanical Ventilation." Computers in Biomedical Research, 32 (1999): 355-390.

Amini, B., Clark, J.W. Jr. and Canavier, C.C. "Calcium Dynamics Underlying Pacemaker-Like and Burst Firing Oscillations in Midbrain Dopaminergic Neurons: A Computational Study." J. Neurophysiology, 82 (1999): 2249-2261.

D.A. Baxter, H.A. Lechner, C.C. Canavier, R.J. Butera, A.A. DeFranceschi, J.W. Clark, and J.H. Byrne "Coexisting Stable Oscillatory States in Single Cell and Multi cellular Neuronal Oscillators." Oscillations in Neural Systems, D.S. Levine V.R. Brown, and V.T. Shirley, eds. (1999): 51-77.

L. Sun, J-S. Fan, J.W. Clark and P.T. Palade "A model of the L-type Ca2+ channel in rat ventricular myocytes: Ion selectivity and inactivation mechanisms." J. Physiology (London), 529 (2000): 139-158.

Athanasiades, A., J.W. Clark Jr., F. Ghorbel and A. Bidani "An Ionic Current Model for Medullary Respiratory Neurons." J. Computational Neuroscience, 9 (2000): 237-257.

Athanasiades, A., F. Ghorbel, J.W. Clark Jr., S.C. Niranjan, J.Olansen, J.B. Zwischenberger, and A. Bidani "Energy Analysis of a Nonlinear Model of the Normal Human Lung." Biological Systems, 8 (2000): 115-139.

J.B. Olansen, F. Ghorbel, J.W. Clark Jr. and A. Bidani "Using Virtual Instrumentation to Develop a Modern Biomedical Engineering Laboratory." International J. Engineering Education, 16 (2000): 244-254.

K. Lu, J.W. Clark, F.H. Ghorbel, D.L. Ware and A. Bidani "A Human Cardiopulmonary System Model Applied to the Analysis of the Valsalva Maneuver." Amer. J. Physiol., 281 (2001): H2661-H2679.

Baxter, D.A., C.C. Canavier, J.W. Clark Jr. and J.H. Byrne "Computational Model of the Serotonergic Modulation of Sensory Neurons in Aplysia." J. Neurophysiology, 82 (1999): 2914-2935.

C.C. Canavier, D.A. Baxter, J.W. Clark and J.H. Byrne "Control of Multistability in Ring Circuits of Oscillators." Biological Cybernetics, 80 (1999): 87-102.

S.S. Demir, J.W. Clark and W.R. Giles "Parasympathetic Modulation of Sinoatrial Node Pacemaker Activity in Rabbit Heart: A Unifying Model." Amer. J. Physiol., 2 (1999): H2221-H2244.

Olansen, J.B., Clark, J.W., Khoury, D., Ghorbel, F. and Bidani, A. "A closed-loop model of the canine cardiovascular system that includes ventricular interaction." Computers in Biomedical Research, 33 (2000): 260-295.

Refereed Article

Comparison Between Two Super-resolution Implementations in PET Imaging (in press)

C. Luo, J.W. Clark Jr., C.C. Canavier, D.A. Baxter and J.H. Byrne "Multimodal behavior in a four neuron ring circuit: Mode switching." IEEE Trans. on Biomed. Engr., 51(2) (2004): 205-218.

K. Lu, J. Clark, Jr., F. Ghorbel, D.L. Ware, A. Bidani "A human cardiopulmonary system model applied to the analysis of the Valsalva maneuver." American Journal of Physiology, 281 (2001): H2661-H2679.

J. Yang, C. Robertson, R.M. Bryan, J.Clark, Jr. "The myogenic response in isolated rat cerebrovascular arteries: Smooth muscle cell model." Medical Engineering Physics, 25(8) (2003): 691-709.

J. Yang, R.M. Bryan, C. Robertson, J. Clark, Jr. "The myogenic response in isolated rat cerebrovascular arteries: Vessel model." Medical Engineering Physics, 25(8) (2003): 711-717.

Lu, K., J.W. Clark Jr., F.H. Ghorbel, D.L. Ware, J.B. Zwischenberger, and A. Bidani "Whole-body gas exchange in human predicted by a cardiopulmonary model." J. Cardiovascular Engineering: An International Journal, 3 (2003): 1-19.

C. Luo, J.W. Clark Jr., T.A. Heming and A. Bidani "A Simplified Model for V-ATPase H+ Extrusion." I.E.E.E. Transactions on Nanobioscience, 3 (2004): 257-264.

Amini, B., A. Bidani, J.B. Zwischenberger, and J.W. Clark, Jr. "A model of the rat phrenic motor neuron." IEEE Trans. on Biomed. Engr., 51 (2004): 1103-1114.

Yue, Y., J.W. Clark Jr. and D. Khoury, Speckle Tracking in Intracardiac Echocardiography for the Assessment of Myocardial Deformation,IEEE Trans. on Biomed. Engr (in press)

Chang G, Pan T, Clark JW Jr, Mawlawi OR, Optimization of super-resolution processing using incomplete image sets in PET imaging Medical Physics 2008;35(12):5748-57.

Luo, C., D. L. Ware, J. B. Zwischenberger and J. W. Clark Jr., A Mechanical Model of the Human Heart Relating Septal Function to Myocardial Work and Energy, J. Cardiovascular Engrineering, 8(3):174-184, 2008.

Luo, C., D. L. Ware, J. B. Zwischenberger and J. W. Clark Jr., Using a Human Cardiopulmonary Model to Study and Predict Normal and Diseased Ventricular Mechanics, Septal Interaction, and Atrio-Ventricular Blood Flow Patterns, J. Cardiovasc. Engr. 7:1731, 2007.

Lu, K., J.W. Clark Jr., F.H. Ghorbel, C.S. Robertson, D.L. Ware, "Cerebral autoregulation and gas exchange studied with a human cardiopulmonary model." Amer. J. Physiol., 286 (2004): H584-H601.

Qiao F, T. Pan, J.W. Clark Jr and O.R. Mawlawi, Joint Model of Motion and Anatomy for PET image Reconstruction, Med. Physics, 34(12):4626-4639, 2007.

Presentations

Invited Talk

A Human Cardio-Respiratory Model: Applications in Critical Care Medicine, C. Luo and J.W. Clark Jr., presented at Biomedical Modeling and Cardiovascular-Respiratory Control: Theory and Practice Workshop, Schloss Seggau, Leibnitz, Austria 2-4 August 2007. Invited talk presented by J.W. Clark Jr. at Workshop http://www.uni.at/mc_training_schools/graz/workshop/

"A Large-Scale Model of the Human Cardiovascular-Respiratory System." Department of Computer Science, University of Houston. (12/11/2006)

Mechanisms Underlying Cardiac Tamponade and Pulsus Paradoxus: Utilization of a Human Cardiovacular-Respiratory System Model, D. P. Ramachandran, C. Luo, T. Ma, J. W. Clark, Jr., Invited Talk presented by J.W. Clark Jr. at the European Communications of Mathematical and Theoretical Biology (ECMTB) Conference at the University of Edinburgh, Edinburgh, Scotland, 29 June � 4 July, 2008.

Using a Human Cardiopulmonary Modeto Study Left Ventricular Diastolic Dysfunction (LVDD)," C. Luo, D.L. Ware, J.B. Zwischenberger and J.W. Clark Jr..Invited talk presented by J.W. Clark Jr. at Annual Conference of the Biomedical Engineering Society (BMES)at the Renaissance Hollywood Hotel, 26-29 September 2007, Los Angeles, CA

Other

"A Mathematical Model of the Human Cardiopulmonary System." K. Lu, J.W. Clark, F. Ghorbel, and A. Bidani, Abstracts of the 19th Annual Houston Conference on Biomedical Engineering Research, Houston, TX, , pg 56, held at University Hilton Hotel, Houston, TX.. (8-9 Feb, 2001)

"An Ionic Current Model for Respiratory Neurons in the Rat Ventral Nucleus Tractus Solitarii." 17th Houston Conference on Biomedical Engineering Research, Houston, TX. (11-12 February, 1999) With A. Athanasiades, J.W. Clark, F. Ghorbel and A. Bidani.

"Modeling the Electrical Activity of Cardiac Cells." Keck Center for Computational Biology, Keck Bldg., Rice University. (6 October, 2000)

"Quantitative Modeling of Neurons and Small Neural Networks Networks." UTMB Galveston, The Biomedical Engineerint Center, UT Medical Branch at Galveston. (27 February 1998)

"Electrical and Mechanical Activity of the Rat Cerebrovascular Smooth Muscle Cell: A Modeling Study." J. Yang, J.W. Clark, R. Bryan, and C. Robertson, Abstracts of the 19th Annual Houston Conference on Biomedical Engineering Research, Houston, TX, , pg 119, held at University Hilton Hotel, Houston, TX.. (8-9 February, 2001)

"Integration of Classical Biomedical Experimentation with Modern Data Acquisition and Analysis." 17th Houston Conference on Biomedical Engineering Research, Houston, TX. (2-3 April, 1999) With J.B. Olansen, F. Ghorbel and J.W. Clark.

"Mathematical Model of Cytosolic pH, Cell Volume and Ion Regulation in Alveolar Macrophages" A. Bidani, T. Heming and J. W. Clark Abstracts of the 18th Houston Conference on Biomedical Engineering Research, Houston, TX, 10-11 Feb, 2000, pg 16.." 18th Houston Conference on Biomedical Engineering Research, Houston, TX, University Hilton Hotel, Houston, TX.

"Noncontact Mapping of Endocardial Electrograms." Abstract of the 16th Houston Conference on Biomedical Engineering Research, Houston, TX. (2-3 April 1998. p. 20.) With F. Zhang, K. Berrier, E.0. Velipasaoglu, J.W. Clark and D.S. Khoury.

"A Hemodynamic Model of the Rat Systemic Arterial System." 17th Houston Conference on Biomedical Engineering Research, Houston, TX. (2-3 April, 1999) With K. Alfrey, J.B. Olansen, I.K. Krishnappa, E.M. Golding, C.S. Robertson and J.W. Clark .

"A Model of Human Cardiopulmonary System." K. Lu, J. Olansen, J.W. Clark, F. Ghorbel and A. Bidani,, Abstracts of the 18th Houston Conference on Biomedical Engineering Research, Houston, TX,. (10-11 Feb, 2000, pg 72)

"A Model of the SR Ca2+ Release Complex in Rat Ventricular Myocytes." L. Sun, J-S. Fan, J.W. Clark and P.T. Palade, Abstracts of the 19th Annual Houston Conference on Biomedical Engineering Research, Houston, TX, , pg 107,, held at University Hilton Hotel, Houston, TX.. (8-9 February, 2001)

"Combining Data Acquisition and Analysis of Pulmonary Function Using LabVIEW-Based Algorithms." Abstracts of the 16th Houston Conference on Biomedical Engineering Research,, Houston, TX. (2-3 April 1998, p. 53.) With J.B. Olansen, J.w. Clark, F. Ghorbel, D. Deyo and A. Bidani.

"Closed Loop Pacing: Can Cardiovascular System Models be Used as Conceptual Testbeds for Design?." J.W. Clark, K. Alfrey, J.B. Olansen, F. Ghorbel, A. Bidani, M.C. Andresen and D.L. Kunze, Abstracts of the 18th Houston Conference on Biomedical Engineering Research, Houston, TX. (10-11 Feb, 2000, pg 72)

"Differences in Baroreceptor Response to Slow Pressure Ramps: Analysis of Underlying Ionic Current Mechanisms." Abstracts of the 16th Houston Conference on Biomedical Engineering Research, Houston, TX. (2-3 April 1998, p. 132.) With K.D. Alfrey, J.W. Clark, M.C. Andresen and D.L. Kunze.

"Implementation and Performance of a Motion Tracking System for Stationary MWGC Heart Imaging." L. Sun, J.L.Lacy, C.S. Martin, N. Nayak and J.W. Clark, Abstracts of the 19th Annual Houston Conference on Biomedical Engineering Research, Houston, TX, , pg 151,, held at University Hilton Hotel, Houston, TX.. (8-9 February, 2001)

"Nonlinear Analysis of Neuronal Models." The Bioengineering Research Center, University of Houston, Houston, TX. (19 November, 1999)

"Control of Multistability in ring Circuits." Abstracts of the 16th Houston Conference on Biomedical Engineering Research,, Houston, TX. (2-3 April 1998, p. 153.) With C.C. Canavier, D.a. Baxter, J.w. Clark and J.H. Bryne.

"Modeling Central Pattern Generators." Structural and Computational Biology and Molecular Biophysics Graduate Program, Baylor College of Medicine. (1 December, 1999)

"Neural Regulation of Respiration: A Modeling Approach." A. Athanasiades, J.W. Clark, F. Ghorbel and A. Bidani, Abstracts of the 18th Houston Conference on Biomedical Engineering Research, Houston, TX. (10-11 Feb, 2000, pg 83)

"A Model of Sarcolemmal Ca2+ Current and Cytosolic Ca2+ Transients in a Rat Ventricular Cell." L. Sun, J-S Fan, J.W. Clark, and P.T. Palade, Abstracts of the 18th Houston Conference on Biomedical Engineering Research, Houston, TX. (10-11 Feb, 2000, pg 119)

"Research Activities of the Biological Systems and Instrumentation Group." Computer and Information Technology Institute (CITI), Rice University, Houston, TX. (10 December, 1999)

"Study of Propagation in Excitable Cells of Concentric Cylindrical Geometry Using and Electrodiffusion Model." Abstracts of the 16th Houston Conference on Biomedical Engineering Research,, Houston, TX. (2-3 April 1998, p. 151.) With An. Nygren, J.A. Halter, F.K. Mosallaie, B. Zupan, J.W. Clark, and W.R. Giles.

"A Model of Sarcolemmal Ca2+ Current and Cytosolic Ca2+ Transient in a Rat Ventricular Cell." Abstracts of the Joint Meeting Biomedical Engineering Society (BMES) and the IEEE/Engineering in Medicine and Biology Society (EMBS), Atlanta, GA. (October 13-16, 1999) With L. Sun, J.W. Clark, J.S. Fan.

"Characterization of the Currents Underlying Rhythmic Firing in Dopaminergic Neurons." Abstracts of the 16th Houston Conference on Biomedical Engineering Research,, Houston, TX. (2-3 April 1998, p. 152) With B. Amini, J.W. Clark, C.C. Canavier.

"The Role of Proximal Arterial Pathways in a Model of the Rat Systemic Arterial System." K. Alfrey, L. Cherian, C. S. Robertson and J.W. Clark, Abstracts of the 18th Houston Conference on Biomedical Engineering Research, Houston, TX. (10-11 Feb, 2000, pg 146)

"Modeling and Identification of Cardiovascular Hemodynamics in a Closed-Loop Model with Ventricular Interaction." Abstracts of the Joint Meeting Biomedical Engineering Society (BMES) and the IEEE/Engineering in Medicine and Biology Society (EMBS), Atlanta, GA. (October 13-16, 1999) With J.B. Olansen, J.W. Clark, D. Khoury, F. Ghorbel and A. Bidani.

"Performance of a Physiological Pulsatile Cardiopulmonary bypass Pump System in a Neonatal Piglet Model." Abstracts of the 16th Houston Conference on Biomedical Engineering Research,, Houston, TX. (2-3 April 1998, p. 153) With M. Sorensen, A. Undar, J.W. Clark, T. Masai, M.N. Karabulut, M.A. Mueller, M.C. McGarry, O.H. Frazier, and C.D. Fraser, Jr.

"Analysis of Inspiratory Waveforms on Pulmonary Blood Flow and Gas Exchange During Mechanical Ventilation." Abstracts of the 16th Houston Conference on Biomedical Engineering Research,, Houston, TX. (2-3 April 1998, p. 158) With S.C. Niranjan, A. Bidani, F. Ghorbel, J.B. Zwischenberger and J.W. Clark.

"Baroreceptor Response to Modeled Aortic Pressure." Abstracts of the Joint Meeting Biomedical Engineering Society (BMES) and the IEEE/Engineering in Medicine and Biology Society (EMBS), Atlanta, GA. (October 13-16, 1999) With K. Alfrey, J.W. Clark, J.H. Schild and M. Andresen.

"3D Conduction in the Bullfrog Trabeculum." Abstracts of the Joint Meeting Biomedical Engineering Society (BMES) and the IEEE/Engineering in Medicine and Biology Society (EMBS), Atlanta, GA. (October 13-16, 1999) With S. Cox and J.W. Clark.

"Nonlinear Modeling of Lung Tissue." Abstracts of the 16th Houston Conference on Biomedical Engineering Research,, Houston, TX. (2-3 April 1998, p. 159) With A. Athanasiades, J. Olansen, F. Ghorbel, J.W. Clark, S.C. Niranjan, J.B. Zwischenberger and a. Bidani.

"Gait Generation Characterized by the Phase Sensitive Properties of Synaptically Coupled Neurons." Abstracts of the Joint Meeting Biomedical Engineering Society (BMES) and the IEEE/Engineering in Medicine and Biology Society (EMBS), Atlanta GA. (October 13-16, 1999) With C. Luo, A.A. DeFrancheshi, J.W. Clark, C.C. Canavier, D.A. Baxter and J.H. Byrne.

"An Ionic Current Model for Respiratory Neurons in the Rat vNTS and Guinea Pig Nucleus Ambiguus." Abstracts of the Joint Meeting Biomedical Engineering Society (BMES) and the IEEE/Engineering in Medicine and Biology Society (EMBS), Atlanta, GA. (October 13-16, 1999) With A. Athanasiades, J.W. Clark, F. Ghorbel and A. Bidani.

Editorial Positions

Editorial Board, J. Cardiovascular Engineering, (2001).

Editorial Board, J. Biological Systems, (2001).

Editorial Board, J. Cardiovascular Engineering, (2000).

Editorial Board, J. Biological Systems, (2000).

Member of the Editorial Board, Journal of Biological Systems, (2003).

Member of the Editorial Board, Cardiovascular Engineering: An International Journal, (2003).

Theses

Anders Nygren, Doctoral. "Mechanisms of Repolarization and Conduction in a Mathematical Model of Electrophysiological Responses in the Human Atrium.." (1998).

Fulong Zhang, Masters. "Adaptive Regularization of the Inverse Problem in Electrocardiography Based on Noise Estimation." (1998).

Behrang Amini, Masters. "Characterization of the Currents Underlying Rhythmic Firing in Mammalian Dopaminergic Neurons." (1999).

Karen Alfrey, Doctoral. "Characterizing the Afferent Limb of the Baroreflex." (2000).

Liang Sun, Masters. "A Model of Sarcolemmal Ca2+ Currents and Cytosolic Ca2+ Transients in a Rat Ventricular Cell." (2000).

Athanasios Athanasiades, Doctoral. "Respiratory Function: A Systems Approach." (2000).

Jon Olansen, Doctoral. "Virtual Bio-Instrumentation: Integrating Biomedical Experimentation With Systems-Level Modeling And Analysis." (2000).

, Masters. "A Model of the Human Cardiopulmonary System." (2001).

Jin Yang, Masters. "The Myogenic Mechanism in Rat Cerebral Arteries: A Modeling Study." (2001).

Kim Daniel, M.S. "A Mathematical Model of the Mammalian Ventricular Cell: Mechanistic Explanations of Long Q-T Syndrome." (2002).(Thesis or Dissertation Director)

Junhui Qian, M.S. "A Closed-Loop Model of the Ovine Cardiovascular System." (2003).(Thesis or Dissertation Director)

Jin Yang, PhD. "Modeling Vascular Smooth Muscle." (2004).(Thesis or Dissertation Director)

Kun Lu, Ph.D. "Human Whole-Body Gas Exchange and Cerebral Autoregulation Studied Using A Cardiopulmonary Model." (2004).(Co-Director)

Karen Alfrey, "ECE Department."

Kimberly Daniel, "ECE Department."

Junhui Quian, "ECE Department."

Jin Yang, "BIOE Department."

Kun Lu, "MECH Department Co-Advisor with F. Ghorbel."

Liang Sun, "ECE Department."

Jin Yang, "Bioengineering."

Liang Sun, "ECE DEPT."

Jon Olansen, "MECH ENG DEPT w/ Dr. F. Ghorbel."

Kun Lu, "MECH ENG DEPT w/ Dr. F. Ghorbel."

Athanasios Athanasiades, "MECH ENG DEPT W/ Dr. F. Ghorbel."

Karen Alfrey, "ECE DEPT."

Kim Daniel, "ECE Department."

Junhui Qian, "ECE Department."

Jin Yang, "Bioengineering Department."

Jon Olanson, "MECH Department, Co-Advisor with F. Ghorbel."

Kun Lu, "MECH Department (with F.H. Ghorbel)."

Liang Sun, "ECE Department."

Athanasios Athanasiades, "MECH Department, Co-Advisor with F. Ghorbel."

Grants and Proposals

Modeling Mammalian Ventricular Cells, University of Calgary, Alberta, CA -- with W.R. Giles.

Modeling the Myogenic Mechanism Involved in the Autoregulation of Cerebral Blood Flow, Subcontract to Baylor College of Medicine (NIH).

Modeling of Membrane Dynamics and Intracellular Ion Balances in the Lung Macrophage Cell, UT-Houston Medical School -- Subcontract with A. Bidani.

Cardiopulmonary Systems Analysis.

Neuronal and Network Determinants of Nonlinear Neural Oscillators, Office of Naval Research.

Modeling Mammalian Ventricular Cells, University of Calgary, Alberta, CA -- with W.R. Giles.

Motion Corrected Treadmill Nuclear Angiography, Subcontract to Proportional Technologies, Inc., Houston, TX (NIH).

Modeling Studies of the Sarcoplasmic Reticulum, NIH Grant, P. Palade PhD, Principal Investigator.

Cardiopulmonary Systems Analyhsis, Bioengineering Center, UTMB Galveston.

Modeling of Membrane Dynamics and Intracellular Ion Balances in the Lung Macrophage Cell, UT-Houston Medical School -- Subcontract with A. Bidani.

Modeling the Myogenic Mechanism Involved in the Autoregulation of Cerebral Blood Flow, Baylor College of Medicine -- Subcontract with C. Robertson.

Modeling of Membrane Dynamics and Intracellular Ion Balances in the Lung Macrophage Cell, UT-Houston Medical School -- Subcontract with A. Bidani.

Modeling the Myogenic Mechanism Involved in the Autoregulation of Cerebral Blood Flow, Baylor College of Medicine -- Subcontract with C. Robertson.

Attenuation Correction in PET Images, M.D. Anderson Cancer Center -- with O. Mawlawi.

Vascular Mechanisms of Secondary Insults After Severe Traumatic Brain Injury, NIH Grant, C. Robertson M.D., Principal Investigator.

Cardiopulmonary Systems Analysis, Bioengineering Center, University of Texas Medical Branch, Galveston, TX.

Modeling the Myogenic Mechanism Involved in the Autoregulation of Cerebral Blood Flow, Baylor College of Medicine -- Subcontract with C. Robertson.

Modeling Studies of the Sarcoplasmic Reticulum, Physiology Department, UTMB, Galveston.

Development of Cardiopulmonary Models of Humans and Sheep: Efficacy of Imlantation of a Paracorporeal Artificial Lung, UTMB Galveston -- with J.B. Zwischenberger.

A Model of the Alveolar Macrophage, NIH.

Attenuation Correction in PET Images, M.D. Anderson Cancer Center -- with O. Mawlawi.

Development of Cardiopulmonary Models of Humans and Sheep: Efficacy of Imlantation of a Paracorporeal Artificial Lung, UTMB Galveston -- with J.B. Zwischenberger.

Attenuation Correction in PET Images, M.D. Anderson Cancer Center -- with O. Mawlawi.

Development of Cardiopulmonary Models of Humans and Sheep: Efficacy of Imlantation of a Paracorporeal Artificial Lung, UTMB Galveston -- with J.B. Zwischenberger.