Download Curriculum Vita - Department of Mathematics

Curriculum Vitae
Jared Barber
Postdoctoral Associate
Department of Mathematics
University of Pittsburgh
301 Thackeray Hall
[email protected]
Pittsburgh, PA 15217
http://www.pitt.edu/~jaredb
Office: (412) 624–8346
Birthdate: 12/12/1980
Fax: (412) 624–8397
US Citizen
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Education
 Ph.D. Applied Mathematics, University of Arizona, August 2009.
 M.S. Applied Mathematics, University of Arizona, May 2005.
 B.S. Mathematics Highest Honors, Montana State University-Bozeman, May 2003.
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Research
 August 2010-Present PDE Model of Bacterial Invasion of the Lung
Adapted a pde inflammatory model of necrotizing enterocolitis (see below) to model
bacterial invasion of the lung as occurs in Pneumonia.
 August 2009-Present Parameter estimation via Kalman Filtering Techniques
Developed Kalman filtering tools for parameter estimation including Kalman filtering
techniques which utilize stochastic collocation and eigenfunction expansions to speed up the
Kalman filtering process.
 August 2009-Present PDE Model of Necrotizing Enterocolitis
Took a beginning pde model of necrotizing enterocolitis (an intestinal disease in
premature infants), optimized the code for it, and fixed the parameter values for the model. Used
it to investigate the importance of three-dimensionality on necrotizing enterocolitis.
 January 2005-August 2009 Red Blood Cell Mechanics
Developed three-dimensional formulation elastic membrane movement in vessels.
Continued development of a two-dimensional model (developed by Dr. Tim Secomb) of red
blood cell motion through vessel bifurcations.
 August 2004-2006 Finite Volume Approximation of Shallow Water Waves.
Using finite volume method to approximate how water waves crash against the shore.
Twelve weeks of this research was performed at Los Alamos under the Mathematical Modeling
and Analysis Group summer student program.
 January-May 2004 Survey of Numerical Optimization Techniques
Programmed and learned about seven different numerical optimization techniques.
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 July-August 2003 Enrollment Modeling of Montana State University-Billings
Wrote matlab program to enable moderate prediction of future enrollment at Montana
State University-Billings as well as graphical representation of various past enrollment statistics.
 January-May 2003 Analysis of Hierarchical Point-Source Approximations of the
Magnetic Field Topology and Morphology of the Solar Corona.
Senior honors thesis project investigated if multiple sunspots could be approximated by
grouping sunspots together and treating those groups as individual sunspots in their own right.
 May-August 2001 Characterization of Mark IV and Mark V Electrorefiners
Data for electrorefiners designed to refine uranium through a cathode-anode system was
submitted to a statistical process in which factors that contributed to more efficient refining were
identified. Performed under Department of Energy’s ERULF program.
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Teaching/Mentoring
 August 2010-Present Research Advisor, University of Pittsburgh
Worked with one student on an intestinal inflammatory disease model (August 2010-May
2011), a second student on an ODE model of general inflammation (August 2011Present), and a third student on surrogate models for parameter estimation (October
2011-Present).
 August 2009-Present Instructor, University of Pittsburgh
Taught Calc I (two semesters), II (one semester), III (one semester), and differential
equations (one semester). Included lecturing and, for Calc I, II, and III, overseeing three
recitations.
 August 2008-Dec 2008 Graduate Peer Mentor, University of Arizona.
Ran weekly one hour problem sessions and answered students questions to assist in
graduate level methods of applied mathematics course.
 January 2007-May 2007 Mentoring for (MATH 485), University of Arizona.
Mentored group of four students on their mathematical modeling project.
 June 2006-August 2006 Graduate Peer Mentor, University of Arizona.
Helped students studying for their written mathematics qualifying exam.
 August 2004-May 2005 Graduate Teaching Assistant, University of Arizona
Had/have complete teaching control of a four-credit twenty-five person College Algebra
classroom including constructing all of my own tests excluding the final exam.
 August 2002-May 2003 Undergraduate Teaching Assistant, Montana State University
Bozeman.
Assisted Dr. John Neumeier in teaching General and Modern Physics II by independently
teaching a one-credit laboratory section of fifteen students in the fall. Then assisted Dr. George
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Tuthill in teaching General and Modern Physics I by independently teaching two laboratory
sections of eighteen students apiece including proctoring and grading exams.
 January-May 2001 Student Fellow, Montana State University
Peer mentor for fifteen honors students in the four-credit honors freshman seminar Texts
and Critics. Graded students’ papers and helped direct discussion.
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Computer Skills
 Programming in C and Matlab.
 Familiarity with Maple.
 Finite difference, finite volume, and finite element methods for partial differential
equations using both explicit and implicit time stepping.
 Introductory experience in various optimization algorithms including genetic algorithms,
simulated annealing, direction set, and conjugate gradient methods.
 Used finite element programs, FlexPDE and Comsol, to simulate the motion of interconnected viscoelastic line segments immersed in two-dimensional Stokes flow.
 Programmed Kalman filter (traditional, extended, and ensemble) algorithms.
 Programmed stochastic collocation algorithms.
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Fellowships/Awards
 August 2009-May 2012. RTG Postdoctoral Associate. University of Pittsburgh Math
Department.
 May 2008. SIAM Student Travel Award. SIAM.
 May 2008. Landahl Travel Award. Society for Mathematical Biology.
 August 2006-May 2009. Achievement Rewards for College Scientists (ARCS)
Scholarship, ARCS Foundation Phoenix Chapter.
 May 2007 and May 2008. Herbert E Carter Travel Awards. Graduate Interdisciplinary
Programs Advisory Council (GIDPAC).
 March 2006. Travel Grant Award Graduate and Professional Student Council (GPSC).
 August 2005-May 2008. Biology, Mathematics, and Physics Initiative-BIO5 fellowship,
University of Arizona.
 August 2003-May 2004 & August 2006-May 2007. Vertical Integration Graduate
Research Initiative fellowship, University of Arizona.
 August 1999-May 2003. Presidential Scholarship, Montana State University-Bozeman.
 May 1999, May 2001, May 2002, May 2003. Outstanding Freshman, Sophomore,
Junior, and Senior Student in Mathematics Scholarship, Montana State
University-Bozeman.
 June-August 2001. Energy Research Undergraduate Laboratory Fellowship, DOE.
 May 2003. Honors Degree with Highest Distinction, Montana State UniversityBozeman.
 April 2003. Senior Award for Excellence, MSU Alumni Association and Bozeman Area
Chamber of Commerce.
 August-December 2000. Kain Family Merit Scholarship, Montana State UniversityBozeman.
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Presentations/Workshops
 August 29, 2011. A Three-Dimensional Computational Model of Necrotizing
Enterocolitis. Workshop for Young Researcher in Mathematical Biology (WYRMB),
Mathematical Biosciences Institute, OH.
 June 20-24, 2011. SAMSI/Sandia Summer School on Uncertainty Quantification,
Albuquerque, NM. Attendee.
 May 10, 2011. A Three-Dimensional Computational Model of Necrotizing Enterocolitis.
Complex Biology Systems Group Theme Days, University of Pittsburgh, PA.
 March 25, 2011. ME Seminar. A Three-Dimensional Computational Model for
Intestinal Disease in Premature Infants. ME Seminar, University of Louisville, KY.
 July 12-15, 2010. Stochastic Estimation of Effective Diffusivity and Proliferation Rates
During Wound Closure in the Intestine. SIAM Conference in the Life Sciences, Joint
Annual Meeting. (Poster.)
 April 17, 2010. SIAM Great Lakes Section 2010 Conference: Modeling and Numerical
PDEs in Mathematical Biology. Attendee.
 Nov 4, 2008. GIDP Showcase. Red Blood Cell Motion in Bifurcating Microvessels.
University of Arizona Graduate Interdisciplinary Program Showcase 2008. (Poster.)
 July 30-Aug 2, 2008. Simulated Two-Dimensional Red Blood Cell Motion, Deformation,
and Partitioning in Microvessel Bifurcations. Society for Mathematical Biology 2008
Annual Meeting.
 July 7-11, 2008. Simulated Two-Dimensional RBC Motion, Deformation, and
Partitioning in Microvessel Bifurcations. SIAM 2008 Annual Meeting.
 June 9-20, 2008. Parallel Numerical Methods for Partial Differential Equations. UWyo.
Attendee.
 May 19-23, 2008. Red Blood Cell Motion in Bifurcating Microvessels. IPAM (UCLA)
Optimal Transport Workshop IV: Optimal Transport in the Human Body: Lungs and
Blood. (Poster.)
 April 11, 2008. Two-dimensional model of red blood cell motion through diverging
vessel branches. University of Arizona Math Modeling Seminar.
 November 2, 2007. Red Blood Cell Motion through Diverging Vessel Bifurcations.
University of Arizona Applied Mathematics Student Colloquia.
 August 15-19, 2007. Two-dimensional computational models of red blood cell motion
through microvessel bifurcations and the effects of flexibility. 8th World Congress for the
Microcirculation. (Poster.)
 February 27, 2007. Task Allocation in Social Insects. University of Arizona
Biomathematics Seminar.
 February 9, 2007. Modeling Viscoelastic Red Blood Cell-like Membranes in Two
Dimensions. University of Arizona, Los Alamos Days.
 October 31, 2006. Lattice effects for different models. University of Arizona
Biomathematics Seminar.
 October 22, 2006. Peer Learning Groups. Math Dept Mentoring Seminar.
 October 10, 2006. Investigating Single-Species Dynamics. University of Arizona
Biomathematics Seminar.
 October 2, 2006. Classroom-Based Exercises. Math Dept Mentoring Seminar.
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 June 21-24 & June 26-30, 2006. 9th PIMS Graduate Industrial Mathematics Modeling
Camp & 10th Industrial Problem Solving Workshop. IRMACS Center, Simon Fraser
University.
 February 28, 2006. Introduction to Singularity Methods for Stokes Flow. University of
Arizona Biomathematics Seminar.
 February 24, 2006. Simulating Changing Basin Morphology Using Shoreline Tracking
and the Water Wave Equations. Ocean Sciences 2006 Conference.
 January 28, 2006. Lagrangian Front Tracking and the Numerical Integration of Shallow
Water Waves. Los Alamos National Lab, Los Alamos Days.
 November 10, 2005. Lagrangian Front Tracking and the Numerical Integration of the
Shallow Water Wave Equations. University of Arizona Math Dept., Computational Math
Seminar.
 October 4, 2005. Knowledge Discovery in Biology and Biotechnology Texts. University
of Arizona Biomathematics Seminar.
 August 12, 2005. Numerical Integration of Shallow Water Waves. Los Alamos National
Lab T-7 Group, Los Alamos Mathematical Modeling and Analysis Summer Student
Series.
 December 9, 2004. Finite Volume Methods in Shallow Water Waves. University of
Arizona Math Dept, Second Year Graduate Research Conference.
 May 5, 2004. A Survey of Numerical Optimization Techniques. University of Arizona
Math Dept, RTG Mini-Conference.
 May 9, 2003. Analysis of a Hierarchical Point-Source Approximation of the Magnetic
Field Topology of the Solar Corona. Montana State University-Bozeman University
Honors Program, Honors Thesis Talks.
 August 10, 2001. A Factor/Response Characterization of the Mark IV and Mark V
Electrorefiners. Argonne National Laboratory-West ERULF Undergraduate Student
Presentations.
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Publications
 Barber, JO, Alberding, JP, Restrepo, JM, and Secomb, TW. Simulated two-dimensional
red blood cell motion, deformation, and partitioning in microvessel bifurcations.
Ann.Biomed.Eng. 36: 1690-1698, 2008.
 Barber, JO, Bose, C, Bourlioux, A, Braun, J, Brunelle, E, Garcia, T, Hillen, T, Ong, B.
Burning issues with Prometheus-The canadian wildland fire growth simulation model.
Canadian Applied Math Quarterly, 16: 337-378, 2008.
 Barber, JO, Restrepo, JM, and Secomb, TW. Simulated red blood cell motion in
microvessel bifurcation: Effects of cell-cell interactions on cell partitioning. (Published
online at DOI: 10.1007/s13239-011-0064-4 in Cardiovascular Engineering and
Technology Online First and soon to appear in print.)
 Barber, JO, Tronzo, M, Horvat, C, Clermont, G, Upperman, J, Vodovotz, Y, Yotov, I. A
three-dimensional mathematical and computational model of necrotizing enterocolitis.
(Submitted.)
 Barber, JO, Yotov, I. Parameter estimation for a nonlinear diffusion model of epithelial
cell migration using stochastic collocation and the Karhunen-Loeve expansion. (In
preparation.)
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 Barber, JO, Clermont, G, Yotov, I. A three-dimensional model of inflammation in the
lung: Parameter estimation and in vivo comparison. (In preparation.)
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Professional Activities and Outreach
 August 2011-May 2012. Faculty mentor. University of Pittsburgh.
Interacting with a floor of freshmen in order to enhance their overall experience at the
university.
 February 19, 2011. Creating Faster Matlab Programs for Simple Differential Equations.
Workshop on Matlab. While the workshop was constructed for the local student chapter
of SIAM, all were welcome to attend.
 May 9-10, 2011. Complex Biological Systems Group Theme Days.
Co-organized the meeting with two others at the University of Pittsburgh.
 December 2007, March 2007 & March 2005. High School Calculus Class Visitation
Project. Tucson Magnet High School (2008), Santa Rita High School (2007) &
Amphitheater High School (2005).
Presented research to high school calculus class during one class period in order to gain
their interest in college and math in college.
 January 27, 2007. Tucson Kids Club.
With SIAM members helped show fun ways where math might be used/occur in life.
 Fall 2007, Math Dept Mentoring Seminar Participant.
Discussed and presented topics regarding mentoring students in group settings. Materials
available at: http://math.arizona.edu/~lega/485-585/ms.html.
 March of 2005, 2006, 2007, and 2008. Applied Math Recruitment Weekends.
Assisted with mathematics graduate recruitment weekend by driving recruitees in
University of Arizona van (and taking class to do so).
 August 2003-present. SIAM member and participant.
 August-December 2003. Participant, “High School Days” project, University of Arizona
Math Department.
Assisted in running an all-day applied mathematics workshop by assisting students in
their activities at this workshop and leading a portion of that workshop as well.
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References
Dr. Juan Restrepo
University of Arizona
[email protected].
Dr. Timothy Secomb
University of Arizona
[email protected].
Dr. Gilles Clermont
University of Pittsburgh
[email protected]
Dr. Ivan Yotov
University of Pittsburgh
[email protected].
Neale Hahn
University of Pittsburgh
[email protected]
Angela Athanas
University of Pittsburgh
[email protected]