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Structural and Computational Biology and Molecular Biophysics

Houston, Texas

A BCM research lab.
Structural and Computational Biology & Molecular Biophysics
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John W. Clark, Jr., Ph.D.

John W. Clark, Jr., Ph.D.Professor, Electrical and Computer Engineering, Bioengineering

Rice University


B.S., Christian Brothers University (1962)
M.S., Case Western Reserve University (1965)
Ph.D., Case Western Reserve University (1967)

Research Interests:

In biomedical applications approximately 50 percent of our work is involved in the development of quantitative models of the electrophysiological behavior of cells (neurons, cardiac and smooth muscle cells, alveolar macrophages). The remainder of our work deals with large-scale (organ-level) computer modeling of the cardiovascular and pulmonary systems. Cellular projects are usually done in collaboration with life scientists, whereas organ-level projects involve collaboration with physicians and surgeons. Students engaged in these projects have the opportunity to learn about biological computation, and interact with scientists and physicians in a variety of settings from the research laboratory to critical care medicine.

Selected Publications:

  • Chang T, Chang G, Clark JW Jr, Rohren EM and Malawi OR. A software tool for stitching two PET/CT body segments into a single whole-body image set. J Appl Clin Med Phys, 13(3):3599 (2012). PubMed
  • Ramachandran DP, LuoC, Ma TS and Clark JW. Modeling study of the failing heart and its interaction with an implantable rotary blood pump. Conf Proc IEEE Eng Med Biol Sci. 2011:2403-9 (2011). PubMed
  • Chang G, Chang T, Pan T, Clark JW and Mawlawi OR. Determination of internal target volume from a single positron emission tomography/computed tomography scan in lunch cancer. Int J Radiat Oncol Biol Phys. 83(1):459-66 (2012). PubMed
  • Luo C, Ramachandran D, Ware DL, Ma TS and Clark JW Jr. Modeling left ventrical diastolic dysfunction: classification and key indicators. Theor Biol Med Model, 8:14 (2011). PubMed
  • Chang G, Chang T, Pan T, Clark JW Jr and Mawlawi OR. Joint correction of respiratory motion artifact and partial volume effect in lunch/thoracic PET/CT imaging. Med Phys, 37(12):6221-32 (2010). PubMed
  • Chang G, Chang T ,Pan T, Clark JW Jr and Mawlawi OR. Implementation of an automated respiratory amplitude gating technique for PET/CT: clinical evaluation. J Nucl Med, 51(1):16-24 (2010). PubMed
  • Ramachandran D, Luo C, Ma TS and Clark JW Jr. Using a human cardiovascular-respiratory model to characterize cardiac tamponade and pulsus paradoxus. Theor Biol Med Model, 6:15 (2009). PubMed

For more publications, see listing on PubMed.

Contact Information:

Department: Electrical and Computer Engineering
Address: A224 Abercrombie Lab
6100 S. Main St. MS366
Houston, TX 77005-1892
Phone: 713-348-3597
Fax: 713-348-5686
Additional Links: Rice University, Department of Electrical and Computer Engineering

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