Curriculum Vitae
John Harer
-
Department of Mathematics
Physics Building
Duke University
Durham, NC 27708(919) 660-2845 (office) 
(email)
- Education:
- Ph.D., University of California, Berkeley, 1979
- BS, Haverford College, 1974
- B.A., Haverford College, 1974
- BS, Haverford College, 1974
- Areas of Research
Computational Topology, Computational Biology, Algorithms
- Areas of Interest
- Computational Biology
Computational Topology
Dynamics on Networks
Algorithms
- Professional Experience / Employment History
- Duke University
- Professor of Electrical and Computer Engineering, , 2011 - present
- Director, Computational Biology and Bioinformatics Program, Institute for Genome Sciences and Policy, 2008 - present
- Director, Center for Computational Science, Engineering and Medicine, , 2002 - 2007
- Professor of Computer Science, Computer Science, 2001 - present
- Secondary Appointment
- Vice-Provost for Acdemic Affairs, , July 01, 1999 - December 31, 2004
- Department Chair, Mathematics, July 01, 1994 - June 30, 1999
- Professor of Mathematics, Mathematics, 1993 - present
- Washington and Lee University
- Professor, Mathematics Chair, Rupert Distinguished Professor, Mathematics, 1991 - 1992
- University of Michigan
- Professor, Mathematics, 1989 - 1991
- Associate Professor, Mathematics, 1985 - 1989
- University of Maryland
- Assistant Professor, Mathematics, 1983 - 1985
- Columbia University
- Ritt Assistant Professor, Mathematics, 1979 - 1983
- Visiting Positions
- Visitor, Institute Curie, July 01, 2007 - June 30, 2008
- Professor, Scuola Normale Superiore, 1997 - 1998
- Professor, Duke University, 1992 - 1993
- Professor, Scuola Normale Superiore, 1997 - 1998
- Awards, Honors, and Distinctions
Henry Russell Award, University of Michigan, July, 1988
Faculty Recognition Award, University of Michigan, July, 1987
Fellowship, Sloane Foundation, July, 1987
Postdoctoral Fellowship, NSF, July, 1983
- Recent Grant Support
- Geometric and Topological Methods for Multi-Modal Data Analysis and Fusion, Air Force Office of Scientific Research, FA9550-18-1-0266, 2018/06-2023/06.
- Geometric and Topological Methods for Multi-Modal Data Analysis and Fusion, Air Force Office of Scientific Research, FA9550-18-1-0266, 2018/06-2023/06.
- Selected Recent Invited Talks
- Topological Data Analysis, NCState, November 24, 2014
- Topological Data Analysis, ICERM (Brown University), October 23, 2014
- Topological Data Analysis and Machine Learning for Behavioral Description, Air Force Research Lab - Rome NY, August 12, 2014
- Topological Data Analysis, CCR Princeton, May 8, 2014
- Topological Data Analysis, Valley Tech Systems, May 5, 2014
- Topological Data Analysis, APL - JHU, April 17, 2014
- Inferring Control from Topology & Data, AFOSR Annual Review, DC, December 17, 2013
- Topological Data Analysis, Raytheon Corporation, Woburn Mass, July, 2013
- Finding Gene Regulatory Networks and Their Parameters from Time Series Gene Expression Data, Duke - National University of Singapore, June 11, 2013
- Learning Tracks and Group Behavior, Melbourne University - Defence Sciences Institute, June, 2013
- Persistent Homology of Time-Delay Embeddings, Melbourne University - Defence Sciences Institute, June, 2013
- Topological Data Analysis, Australian National University, Canberra, Australia, June, 2013
- Topological Data Analysis, Melbourne University - Defence Sciences Institute, June, 2013
- Topological Data Analysis, Duke University - LAS Leadership Visit, May 31, 2013
- DARPA BIochronicity: Biochronicity: Time, evolution, networks, and function, Arlington, Va., May, 2013
- Topology for Tracking, APL, March 15, 2013
- Obstruction Theory and Quantum Information, Oxford University, March, 2013
- Topology and Security, London Institute for Mathematical Sciences, March, 2013
- Topological Data Analysis, Haverford College, February, 2013
- Topological Data Analysis,, UNCG, February, 2013
- Inferring Control from Topology & Data, AFOSR Annual Review, DC, December 21, 2012
- Building Regulatory Networks for Periodic Procceses, Duke Systems Biology Seminar, November, 2012
- Building Regulatory Networks _x000B_for Periodic Procceses, Duke Systems Biology Seminar, 1 November 2012
- Frechet means for persistence diagrams and vineyads, BIRS, October, 2012
- Mathematical Ideas in the Life Sciences Modeling Cellular Clocks, DIMACS (Rutgers), September, 2012
- Topological Data Analysis, Applied Communication Sciences, September, 2012
- Building Gene Regulatory Networks for Periodic Processes, Duke CBB, August, 2012
- DARPA Biochronicity: Toward Building a Unified Biological Clock and Understanding its Response to External Factors, Seattle, August, 2012
- DARPA BIochronicity: Biochronicity: Time, evolution, networks, and function, Duke University, May 08, 2012
- DARPA Biochronicity Kick-Off: Biochronicity: Time, evolution, networks, and function, San Diego, February, 2012
- DARPA Biochronicity: Algorithms and methods of discovering periodicity in biological datasets, San Diego, February, 2012
- Time Series, Time Varying Data, Geometry and Topology, Incline Village, Nevada, February, 2012
- Topological & Geometric Structure in Noisy Data, Incline Village, Nevada, February, 2012
- Inferring Control from Topology & Data, AFOSR Annual Review, November 29, 2011
- Structure in Noisy Data, Siam Conference NCState University, October 7, 2011
- Structure in Data, Duke RTG Seminar, September 8, 2011
- Modeling Gene Networks, DARPA Fun Bio Final Review, August 29, 2011
- Networks That Self-Heal: Slime Molds in Action, Duke RTG Seminar, May 19, 2011
- Structure in Data, Johns Hopkins Advanced Physics Laboratory, May 17, 2011
- Statistics on Persistence Diagrams, Ohio State Computatiional Geometry Seminar, April 09, 2011
- Structure in Data, Ohio State Colloquium, April 8, 2011
- Structure in Data, Virginia Tech Colloquium, April 1, 2011
- Community Network - Biological Inspiration, Princeton University, 17 December 2010
- Community Network -_x000B_Biological Inspiration, Princeton University, 17 December 2010
- Computational Topology Methods for Dimension Reduction, Duke Univesity, 17 December 2010
- Computational Topology _x000B_Methods for _x000B_Dimension Reduction, Duke Univesity, 17 December 2010
- Control of the Yeast Cell Cycle, Dana Point California, 17 December 2010
- FunBio - Biologically Inspiration for Networks, Princeton University, 17 December 2010
- FunBio_x000B_- Biologically Inspiration_x000B_for Networks, Princeton University, 17 December 2010
- Inferring Control from Topology and Data, AFOSR annual program review, Arlington, VA, November 29, 2010
- Self-Healing Networks, London Institute for Mathematical Sciences, June, 2010
- Network Node FunBio, DARPA FunBio Annual Review -Dana Point California, January, 2010
- Persistent Local Homology for Root Shape, Duke University Workshop on Plant Root Architecture, October 01, 2009
- Dynamics of Biological Models of Gene Regulator y Networks, Curie Institute, Paris, August 10, 2009
- Finding Cycles in Boolean Networks, London Institute of Mathematical Sciences, June 11, 2009
- Plant Root Architecture, Georgia Tech, May 27, 2009
- Dynamics on Biological Networks, Duke FunBio DARPA Meeting, April 3, 2009
- Persistence, Point Clouds and Local Homology, George Washington University, March 23, 2009
- Gene Regulatory Network Clocks., Duke University Systems Biology Seminar, March 18, 2009
- Persistence, Point Clouds and Local Homology, Rutgers - IAS Workshop, March 04, 2009
- Persistent Homology and Applications, Dept of Mathematics, UNCG, November 10, 2008
- How do Biological Networks Keep Time, CBB Retreat, Sept, 2008
- Persistence, Point Clouds and Local Homology, Ecole Normale Superior, March, 2008
- Persistent Intersection Homology, INRIA - Sophia Antipolis, June, 2008
- Persistent Homology for root shape description, DARPA TDA meeting - San Diego, December, 2007
- Topology and Biology, DARPA FunBio meeting - San Diego, December, 2007
- Topological Persistence, Rutgers University, November, 2006
- Persistence for Image Analysis, MSRI, October, 2006
- Extended Persistence with Applications, MSRI, September, 2006
- Discovering Stratified Structures in Datasets, DARPA meeting - Santa Barbara, May, 2006
- Discovering stratified structure using local homology, DARPA meeting, Duke University, December 15, 2005
- Using flattening for surface comparison, NIST site review, Geomagic, RTP, November 29, 2005
- Extended Persistence and Intersection Homology, DARPA meeting, San Raphael, California, October 30, 2005
- 2004 IMA New Directions Short Course in Computational Topology, Institute for Mathematics and its Applications, July 6-16, 2004 [available here]
- Extreme elevation on a 2-manifold, ACM Annual Symposium on Computational Geometry, SCG 2004, 15 December 2004 [htm]
- Time-varying Contour Trees for Continuous Space-Time Data, ACM Annual Symposium on Computational Geometry, SCG 2004, 15 December 2004 [htm]
- HPRM: A Hierarchical PRM, International Conference on Robotics and Automation, 2003 [available here]
- Loops in Reeb Graphs of 2-Manifolds, 19th ACM Symposium on Computational Geometry, 2003 [html]
- Morse Complexes for Piecewise Linear 3-Manifolds, 19th ACM Symposium on Computational Geometry, 2003
- Workshop on Computaional Topology, INRIA Sophia Antipolis, Oct 21-25, 2002 [available here]
- Combinatorial Morse Theory and Persistence, with Applications to Distinguishing Noise from Feature, Lawrence Livermore National Labs, Feb, 2001 [html]
- Conference on Algebraic Topological Methods in Computer Science, Stanford University, 2001 [html]
- Minimal Trap Design, ICRA 2001 , Seoul, 2001
- Topological Data Analysis, ICERM (Brown University), October 23, 2014
- Doctoral Theses Directed
- Anne Collins, Configuration Spaces in Robotic Manipulation and Motion Planning, (2002)
- Chris Odden, (1997)
- Joel Foisy, (1996)
- Chris Odden, (1997)
- Publications (listed separately)
Last modified: 2024/04/24