Jacob Barhak
Email: jacob dot barhak at gmail dot com 
Researcher / Developer / Disease Modeler
Welcome to my home page. I am a Researcher/Developer with multidisciplinary background. This includes Engineering and Computer Science and recently HealthCare. I am particularly interested in combinations of different disciplines.
Multimedia presentations describing my research can be viewed by clicking on the links and images below. These are followed by a short professional biography summary and by my publications - also see My Citations in Google Scholar. You will find code in my GitHub page.
My main effort these days is computational disease modeling. The Reference Model for Disease Progression is my main focus.

These days I coordinate the population modeling mailing list. I chaired of the Bio-Medical and Population Modeling track in SummerSim. I advocate public non blind review in scientific publication.. I also organized the Austin Evening of Python Coding Meetup

My research interests are: Computational Disease Modeling, High Performance Computing, Computer Aided Design, Computer Graphics, Geometric Reconstruction, Machine Learning, Computational Geometry, Computational Methods, Information Technology, Inspection Systems, Computer Vision.
My Research In Pictures and Videos:


Statistical / Economic Chronic Disease Modeling

Academic degrees:
  • B.A. in Computer science from the Technion - Israel institute of technology (1993).
  • B.Sc. in Mechanical engineering from the Technion - Israel institute of technology (1993).
  • M.A. for completing the requirements for the Masters degree during the Ph.D. studies from the Technion - Israel institute of technology (2000).
  • Ph.D. from the Technion Israel institute of technology, Mechanical Engineering department. Research subject: “Reconstruction of Freeform Objects with Arbitrary Topology from Multi Range Images” (2003).
Associations with organizations:
  • Anaconda formally known as Continuum Analytics I personally performed small contract work for that company in 2013 and 2017. 
  • University of Michigan - worked there as a Post Doc and as a programmer from 2003-2012

  • J. Barhak, Reference model for disease progression - United States Patent 9,858,390, January 2, 2018
Software Published:
Ph.D. Thesis:


Selected Other Publications/Appearances/Talks/Posts:
Journal Publications:
  • J. Barhak, Estimation of a disease model based on a discrete time Markov model using secondary data with transitions based on multi-dimensional tables. Simulation: Transactions of the Society for Modeling and Simulation International 1–23. http://dx.doi.org/10.1177/0037549716673729
  • W. Ye., J. Barhak J., D.J.M. Isaman, Use of Secondary Data to Estimate Instantaneous Model Parameters of Diabetic Heart Disease: Lemonade Method. Information Fusion Volume 13, Issue 2, April 2012, Pages 137-145, http://dx.doi.org/10.1016/j.inffus.2010.08.003
  • Barhak J., Isaman D.J.M., Ye W., Lee D.: Chronic disease modeling and simulation software. Journal of Biomedical Informatics, Volume 43, Issue 5, October 2010, Pages 791-799, http://dx.doi.org/10.1016/j.jbi.2010.06.003
  • D.J.M. Isaman, J. Barhak, W. Ye: Indirect Estimation of a Discrete-State Discrete-time model using Secondary Data Analysis of Regression Data. Statistics in Medicine Volume 28, Number 16, Pages 2095 - 2115, 2009. Online: http://dx.doi.org/10.1002/sim.3599
  • X. Li, I. Guskov, J. Barhak, Feature-based alignment of range scan data to CAD model. International Journal of Shape Modeling Vol. 13, No. 1 (June 2007) Online: http://dx.doi.org/10.1142/S0218654307000920
  • X. Li, J. Barhak, I. Guskov, G. W. Blake, Automatic registration for inspection of complex shapes. Virtual and Physical Prototyping, Volume 2, Issue 2 June 2007, pages 75 - 88. Online: http://dx.doi.org/10.1080/17452750701374339
  • L. Zhu, J. Barhak, V. Srivatsan, R. Katz, Efficient Registration for Precision Inspection of Free-Form Surfaces, the International Journal of Advanced Manufacturing Technology. Published Online, March 18, 2006. Online: http://dx.doi.org/10.1007/s00170-005-0370-9
  • J. Barhak, D. Djurdjanovic, P. Spicer, R. Katz, Integration of Reconfigurable Inspection with Stream of Variations Methodology. International Journal of Machine Tools and Manufacture, Vol. 45, Issues 4-5, April 2005, p. 407-419. Online: http://dx.doi.org/10.1016/j.ijmachtools.2004.09.011
  • F. L. Krause, A. Fischer, N. Gross, J. Barhak, Reconstruction of Freeform Objects with Arbitrary Topology Using Neural Networks and Subdivision Techniques, CIRP Annals, STC Dn, 52/1/2003, p.125, 2003. Online: http://dx.doi.org/10.1016/S0007-8506(07)60547-2
  • J. Barhak, A. Fischer, Adaptive Reconstruction of Freeform Objects with 3D SOM Neural Network Grids, Special Issue on Geometrical Modeling and Computer Graphics, in Journal of Computers & Graphics, vol. 26, no. 5, 2002. Online: http://dx.doi.org/10.1016/S0097-8493(02)00129-2
  • A. Fischer, J. Barhak, Tele Design for Manufacturing, CIRP Annals, STC Dn, 50/1/2001, p.77, 2001. Online: http://dx.doi.org/10.1016/S0007-8506(07)62075-7
  • J. Barhak, A. Fischer, Multi - Reconstruction of a 3D Freeform Object From Range Images, The International Journal for Manufacturing Science & Production Vol 3. Nos. 2-4, 2000. Appears also in CIRP Seminar on Design with Manufacturing: Intelligent Design Concepts Methods and Algorithms, Haifa, Israel, May 16-18, 2000.
  • J. Barhak, A. Fischer, Adaptive Parameterization for Reconstruction of 3D Freeform Objects from Laser-Scanned Data based on a PDE approach, The Visual Computer Vol. 17 No. 6, August 2001 p. 351-369. Online: http://www.springerlink.com/content/ut801y7f5nre835c/
  • J. Barhak, A. Fischer, Parameterization and Reconstruction from 3D Scattered Points Based on Neural Network and PDE Techniques, IEEE Transactions on Visualization & Computer Graphics, Vol. 7, No.1, January-march, 2001 p.1-16. Online: http://doi.ieeecomputersociety.org/10.1109/2945.910817
Technical Reports:
  • J. Barhak, A. Fischer, “B-Spline Surface Reconstruction from Single Range Image using Parameterization based on PDE Solution”, TME 461, Mechanical Engineering, Technion, Haifa, Israel, March 1999.
  • J. Barhak, R. Katz, “Alignment and Measurement Extraction Procedures for the Reconfigurable Inspection Machine”. ERC/RMS Technical Report TR-052-04, University of Michigan, July 21st 2004.


  • Lecturer: ME454 “Computer Aided Mechanical Design”, University of Michigan (2006).
  • Lecturer: 35003 “Interactive Computer Graphics and Introduction to CAD”, Technion (2002).


Now for the Fun part: 

My mom and I translated a classic Pushkin fairy tale to English and Manuel Soto illustrated the E-book. You can get a copy from Amazon by clicking here: