John Harer
Professor of Mathematics
Professor Harer's primary research is in the use of geometric, combinatorial and computational techniques to study a variety of problems in data analysis, shape recognition, image segmentation, tracking, brain imaging, biological networks and gene expression.
Current Appointments & Affiliations
 Professor of Mathematics, Mathematics, Trinity College of Arts & Sciences 1993
Contact Information
 109 Physic Bldg, Durham, NC 27708
 Box 90320, Durham, NC 277080034
 (919) 6602845
 http://cms.math.duke.edu/harer/?q=home
 Background

Education, Training, & Certifications
 Ph.D., University of California at Berkeley 1979
 B.A., Haverford College 1974

Duke Appointment History
 Professor in the Department of Electrical and Computer Engineering, Electrical and Computer Engineering, Pratt School of Engineering 2011  2016
 Professor in the Department of Computer Science, Computer Science, Trinity College of Arts & Sciences 2001  2014
 Director of the PhD Program in Computational Biology and Bioinformatics, University Institutes and Centers, Institutes and Provost's Academic Units 2010  2012
 Chair, Department of Mathematics, Mathematics, Trinity College of Arts & Sciences 1994  1999
 Visiting Professor, Mathematics, Trinity College of Arts & Sciences 1992  1993
 Research

Selected Grants
 Geometric and Topological Methods for MultiModal Data Analysis and Fusion awarded by Air Force Office of Scientific Research 2018  2021
 BIGDATA: F: DKA: CSD: Topological Data Analysis and MachineLearning with CommunityAccepted Features awarded by National Science Foundation 2014  2019
 An Adaptive Pipeline from Scientific Data to Models awarded by Defense Advanced Research Projects Agency 2017  2018
 Quantifying Complex Spatiotemporal Systems awarded by Rutgers, The State University of New Jersey 2016  2018
 EMSW21RTG: Geometric, Topological awarded by National Science Foundation 2011  2018
 ATD: Online Multiscale Algorithms for Geometric Density Estimation in HighDimensions and Persistent Homology of Data fo awarded by National Science Foundation 2012  2017
 Foundation of Information Systems awarded by Johns Hopkins University 2012  2017
 Analysis of High Dimensional Complex SpatioTemporal Data awarded by Defense Advanced Research Projects Agency 2015  2016
 Inferring Network Controls awarded by Air Force Office of Scientific Research 2010  2015
 A Multidimensional Imaging Platform to Analyze Crop Root System Dynamics in Response to Changing Environments awarded by Department of Agriculture 2011  2013
 GEPR: Genomewide analysis of root traits awarded by National Science Foundation 2008  2012
 Duke on Network Security awarded by Air Force Office of Scientific Research 2010  2011
 Doctoral Program in Management and Analysis of Large Data Acquired from Sensors awarded by Department of Education 2007  2011
 TRPGR Genomic Approaches to Identify Genes for Root System Architecture Traits awarded by National Science Foundation 2006  2008
 Distributed multiscale geometric processing on realtime sensor networks on radiation fields awarded by National Science Foundation 2002  2004
 Persistence, Combinatorial Morse Functions awarded by National Science Foundation 2001  2003
 (980205) Computational Geometry, Robotics, and Geographic Information Systems awarded by National Science Foundation 1998  2000
 (961030) The Moduli Space of Curves; Its Leveln Covers and Torelli Space awarded by National Science Foundation 1994  1997
 (940252) The Moduli Space of Curves, its Level n Covers and Torelli Space awarded by National Science Foundation 1994  1996
 (950888) The Moduli Space of Curves, its Leveln Covers and Torelli Space awarded by National Science Foundation 1994  1996
 (930786) Mathematical Sciences Mapping Class Group & Invariants of 3Manifolds awarded by National Science Foundation 1992  1994
 (920802) Mapping Class Group and Invariants of 3Manifolds awarded by National Science Foundation 1992  1994
 Publications & Artistic Works

Selected Publications

Books
 Edelsbrunner, H, and Harer, J. Computational Topology  an Introduction. American Mathematical Society, 2010.

Conference Papers
 Garagić, D, Peskoe, J, Liu, F, Claffey, MS, Bendich, P, Hineman, J, Borggren, N, Harer, J, Zulch, P, and Rhodes, BJ. "Upstream fusion of multiple sensing modalities using machine learning and topological analysis: An initial exploration." June 25, 2018. Full Text
 Bendich, P, Gasparovic, E, Harer, J, and Tralie, C. "Geometric models for musical audio data." June 1, 2016. Full Text Open Access Copy
 Rouse, D, Watkins, A, Porter, D, Harer, J, Bendich, P, Strawn, N, Munch, E, Desena, J, Clarke, J, Gilbert, J, Chin, S, and Newman, A. "Featureaided multiple hypothesis tracking using topological and statistical behavior classifiers." January 1, 2015. Full Text
 Edelsbrunner, H, and Harer, J. "Persistent homology  a survey." Joint Summer Research Conference of the AMS/IMS/SIAM. Snowbird, UT. June 18, 2006  June 22, 2006.: AMER MATHEMATICAL SOC, January 1, 2008. Link to Item
 Bendich, P, CohenSteiner, D, Edelsbrunner, H, Harer, J, and Morozov, D. "Inferring Local Homology from Sampled Stratified Spaces." IEEE Computer Society, 2007. Full Text
 Bendich, P, CohenSteiner, D, Edelsbrunner, H, Harer, J, and Morozov, D. "Inferring local homology from sampled stratified spaces." 2007. Full Text Link to Item

Journal Articles
 Tralie, CJ, Smith, A, Borggren, N, Hineman, J, Bendich, P, Zulch, P, and Harer, J. "Geometric CrossModal Comparison of Heterogeneous Sensor Data." Proceedings of the 39th IEEE Aerospace Conference (March 2018). Open Access Copy Link to Item
 Hughes, ME, Abruzzi, KC, Allada, R, Anafi, R, Arpat, AB, Asher, G, Baldi, P, de Bekker, C, BellPedersen, D, Blau, J, Brown, S, Ceriani, MF, Chen, Z, Chiu, JC, Cox, J, Crowell, AM, DeBruyne, JP, Dijk, DJ, DiTacchio, L, Doyle, FJ, Duffield, GE, Dunlap, JC, EckelMahan, K, Esser, KA, FitzGerald, GA, Forger, DB, Francey, LJ, Fu, YH, Gachon, F, Gatfield, D, de Goede, P, Golden, SS, Green, C, Harer, J, Harmer, S, Haspel, J, Hastings, MH, Herzel, H, Herzog, ED, Hoffmann, C, Hong, C, Hughey, JJ, Hurley, JM, de la Iglesia, HO, Johnson, C, Kay, SA, Koike, N, Kornacker, K, Kramer, A, Lamia, K, Leise, T, Lewis, SA, Li, J, Li, X, Liu, AC, Loros, JJ, Martino, TA, Menet, JS, Merrow, M, Millar, AJ, Mockler, T, Naef, F, Nagoshi, E, Nitabach, MN, Olmedo, M, Nusinow, DA, Ptáček, LJ, Rand, D, Reddy, AB, Robles, MS, Roenneberg, T, Rosbash, M, Ruben, MD, Rund, SSC, Sancar, A, SassoneCorsi, P, Sehgal, A, SherrillMix, S, Skene, DJ, Storch, KF, Takahashi, JS, Ueda, HR, Wang, H, Weitz, C, Westermark, PO, Wijnen, H, Xu, Y, Wu, G, Yoo, SH, Young, M, Zhang, EE, Zielinski, T, and Hogenesch, JB. "Guidelines for GenomeScale Analysis of Biological Rhythms." Journal of Biological Rhythms 32, no. 5 (October 2017): 380393. Full Text
 Bendich, P, Chin, SP, Clark, J, Desena, J, Harer, J, Munch, E, Newman, A, Porter, D, Rouse, D, Strawn, N, and Watkins, A. "Topological and statistical behavior classifiers for tracking applications." IEEE Transactions on Aerospace and Electronic Systems 52, no. 6 (December 2016): 26442661. Full Text
 McGoff, KA, Guo, X, Deckard, A, Kelliher, CM, Leman, AR, Francey, LJ, Hogenesch, JB, Haase, SB, and Harer, JL. "The Local Edge Machine: inference of dynamic models of gene regulation." Genome biology 17, no. 1 (October 19, 2016): 214. Full Text
 Bendich, P, Gasparovic, E, Harer, J, and Tralie, C. "Geometric Models for Musical Audio Data." Proceedings of the 32st International Symposium on Computational Geometry (SOCG) (June 2016). Link to Item
 Bendich, P, Gasparovic, E, Harer, J, Izmailov, R, and Ness, L. "Multiscale local shape analysis and feature selection in machine learning applications." Proceedings of the International Joint Conference on Neural Networks 2015September (September 28, 2015). Full Text Open Access Copy
 Perea, JA, Deckard, A, Haase, SB, and Harer, J. "SW1PerS: Sliding windows and 1persistence scoring; discovering periodicity in gene expression time series data." BMC bioinformatics 16 (August 16, 2015): 257. Full Text
 Farr, RS, Harer, JL, and Fink, TMA. "Easily repairable networks: reconnecting nodes after damage." Physical review letters 113, no. 13 (September 26, 2014): 138701. Full Text
 Bristow, SL, Leman, AR, Simmons Kovacs, LA, Deckard, A, Harer, J, and Haase, SB. "Checkpoints couple transcription network oscillator dynamics to cellcycle progression." Genome Biology 15, no. 9 (September 5, 2014): 446null. Full Text
 Turner, K, Mileyko, Y, Mukherjee, S, and Harer, J. "Fréchet Means for Distributions of Persistence Diagrams." Discrete & Computational Geometry 52, no. 1 (July 2014): 4470. Full Text
 Perea, JA, and Harer, J. "Sliding Windows and Persistence: An Application of Topological Methods to Signal Analysis." Foundations of Computational Mathematics 15, no. 3 (2014): 799838. Full Text
 Deckard, A, Anafi, RC, Hogenesch, JB, Haase, SB, and Harer, J. "Design and analysis of largescale biological rhythm studies: a comparison of algorithms for detecting periodic signals in biological data." Bioinformatics (Oxford, England) 29, no. 24 (December 2013): 31743180. Full Text
 Topp, CN, IyerPascuzzi, AS, Anderson, JT, Lee, CR, Zurek, PR, Symonova, O, Zheng, Y, Bucksch, A, Mileyko, Y, Galkovskyi, T, Moore, BT, Harer, J, Edelsbrunner, H, MitchellOlds, T, Weitz, JS, and Benfey, PN. "3D phenotyping and quantitative trait locus mapping identify core regions of the rice genome controlling root architecture." Proceedings of the National Academy of Sciences of the United States of America 110, no. 18 (April 11, 2013): E1695E1704. Full Text
 Topp, , CN, , IyerPascuzzi, AS, Anderson, JT, Lee, CR, Zurek, PR, Symonova, O, Zheng, Y, Bucksch, A, Milyeko, Y, Galkovskyi, T, Moore, BT, Harer, J, Edelsbrunner, H, MitchellOlds, T, Weitz, JS, and Benfey, PN. "3dimensional phenotyping of growing root systems and QTL mapping identifies core regions of the rice genome controlling root architecture (Submitted)." PNAS 110 (2013): E16951704.
 Munch, E, Shapiro, M, and Harer, J. "Failure filtrations for fenced sensor networks." The International Journal of Robotics Research 31, no. 9 (August 2012): 10441056. Full Text
 Bendich, P, Harer, J, and Harer, J. "Persistent Homology Enhanced Dimension Reduction (Submitted)." Foundations of Computational Mathematics (2012). (Academic Article)
 Galkovskyi, T, Mileyko, Y, Bucksch, A, Moore, B, Symonova, O, Price, CA, Topp, CN, IyerPascuzzi, AS, Zurek, PR, Fang, S, Harer, J, Benfey, PN, and Weitz, JS. "GiA Roots: software for the high throughput analysis of plant root system architecture." Bmc Plant Biology 12 (January 2012): 116null. Full Text
 Michael Jenista, . "Realizing Boolean Dynamics in Switching Networks (Submitted)." Siam Journal of Applied Dynamical Systems (2012): 12. (Academic Article)
 Munch, E, Shapiro, M, and Harer, J. "Failure filtrations for fenced sensor networks." International Journal of Robotics Research 31, no. 9 (2012): 10441056. Full Text
 Bendich, P, and Harer, J. "Persistent Intersection Homology." Foundations of Computational Mathematics 11, no. 3 (June 2011): 305336. Full Text
 Bendich, P, Galkovskyi, T, and Harer, J. "Improving homology estimates with random walks." Inverse Problems 27, no. 12 (2011). Full Text
 Bini, G, and Harer, J. "Euler characteristics of moduli spaces of curves." Journal of the European Mathematical Society 13, no. 2 (2011): 487512. Full Text
 Bini, G, and Harer, J. "Euler characteristics of moduli spaces of curves." JOURNAL OF THE EUROPEAN MATHEMATICAL SOCIETY 13, no. 2 (2011): 487512. Full Text Link to Item
 Mileyko, Y, Mukherjee, S, and Harer, J. "Probability measures on the space of persistence diagrams." Inverse Problems 27, no. 12 (2011). Full Text
 CohenSteiner, D, Edelsbrunner, H, Harer, J, and Mileyko, Y. "Lipschitz Functions Have L p Stable Persistence." Foundations of Computational Mathematics 10, no. 2 (April 2010): 127139. Full Text
 IyerPascuzzi, AS, Symonova, O, Mileyko, Y, Hao, Y, Belcher, H, Harer, J, Weitz, JS, and Benfey, PN. "Imaging and analysis platform for automatic phenotyping and trait ranking of plant root systems." Plant Physiology 152, no. 3 (March 2010): 11481157. Full Text
 CohenSteiner, D, Edelsbrunner, H, Harer, J, and Morozov, D. "Persistent homology for kernels, images, and cokernels." Proceedings of the Annual ACMSIAM Symposium on Discrete Algorithms (2009): 10111020.
 CohenSteiner, D, Edelsbrunner, H, and Harer, J. "Extending persistence using poincaré and lefschetz duality." Foundations of Computational Mathematics 9, no. 1 (2009): 79103. Full Text
 CohenSteiner, D, Edelsbrunner, H, and Harer, J. "Extending persistence using poincaré and lefschetz duality (Foundations of Computational Mathematics DOI 10.1007/s102080089027z)." Foundations of Computational Mathematics 9, no. 1 (2009): 133134. Full Text
 Edelsbrunner, H, and Harer, J. "The persistent Morse complex segmentation of a 3manifold." Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 5903 LNCS (2009): 3650. Full Text
 Fink, T, Ahnert, S, Bar On, R, and Harer, J. "Exact dynamics of Boolean networks with connectivity one (Submitted)." PRL (2009). (Academic Article)
 Edelsbrunner, H, Harer, J, Mascarenhas, A, Pascucci, V, and Snoeyink, J. "Timevarying Reeb graphs for continuous spacetime data." Computational Geometry: Theory and Applications 41, no. 3 (2008): 149166. Full Text
 Edelsbrunner, H, Harer, J, and Patel, AK. "Reeb spaces of piecewise linear mappings." Proceedings of the Annual Symposium on Computational Geometry (2008): 242250. Full Text
 Attali, D, Edelsbrunner, H, Harer, J, and Mileyko, Y. "Alphabeta witness complexes." Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 4619 LNCS (2007): 386397.
 Bendice, P, CohenSteiner, D, Edelsbrunner, H, Harer, J, and Morozov, D. "Inferring local homology from sampled stratified spaces." Proceedings  Annual IEEE Symposium on Foundations of Computer Science, FOCS (2007): 536546. Full Text
 CohenSteiner, D, Edelsbrunner, H, and Harer, J. "Stability of Persistence Diagrams." Discrete & Computational Geometry 37, no. 1 (January 2007): 103120. Full Text
 Agarwal, PK, Edelsbrunner, H, Harer, J, and Wang, Y. "Extreme elevation on a 2manifold." Discrete and Computational Geometry 36, no. 4 (2006): 553572. Full Text
 CohenSteiner, D, Edelsbrunner, H, and Harer, J. "Stability of persistence diagrams." Proceedings of the Annual Symposium on Computational Geometry (2005): 263271. Full Text
 Agarwal, PK, Edelsbrunner, H, Harer, J, and Wang, Y. "Extreme elevation on a 2manifold." Proceedings of the Annual Symposium on Computational Geometry (2004): 357365.
 ColeMcLaughlin, K, Edelsbrunner, H, Harer, J, Natarajan, V, and Pascucci, V. "Loops in Reeb graphs of 2manifolds." Discrete and Computanional Geometry 32, no. 2 (2004): 231244.
 Edelsbrunner, H, Harer, J, Mascarenhas, A, and Pascucci, V. "Timevarying Reeb graphs for continuous spacetime data." Proceedings of the Annual Symposium on Computational Geometry (2004): 366372.
 Edelsbrunner, H, Harer, J, Natarajan, V, and Pascucci, V. "Local and global comparison of continuous functions." IEEE Visualization 2004  Proceedings, VIS 2004 (2004): 275280.
 ColeMcLaughlin, K, Edelsbrunner, H, Harer, J, Natarajan, V, and Pascucci, V. "Loops in Reeb graphs of 2manifolds." Proceedings of the Annual Symposium on Computational Geometry (July 28, 2003): 344350.
 Collins, AD, Agarwal, PK, and Harer, JL. "HPRM: A hierarchical PRM." Proceedings  IEEE International Conference on Robotics and Automation 3 (2003): 44334438.
 Edelsbrunner, H, Harer, J, Natarajan, V, and Pascucci, V. "MorseSmale complexes for piecewise linear 3manifolds." Proceedings of the Annual Symposium on Computational Geometry (2003): 361370.
 Edelsbrunner, H, Harer, J, and Zomorodian, A. "Hierarchical MorseSmale complexes for piecewise linear 2manifolds." Discrete and Computational Geometry 30, no. 1 (2003): 87107. Full Text
 Agarwal, PK, Collins, AD, and Harer, JL. "Minimal trap design." Proceedings  IEEE International Conference on Robotics and Automation 3 (2001): 22432248.
 Edelsbrunner, H, Harer, J, and Zomorodian, A. "Hierarchical Morse complexes for piecewise linear 2manifolds." Proceedings of the Annual Symposium on Computational Geometry (2001): 7079.
 Goulden, IP, Harer, JL, and Jackson, DM. "A geometric parametrization for the virtual euler characteristics of the moduli spaces of real and complex algebraic curves." Transactions of the American Mathematical Society 353, no. 11 (2001): 44054427.
 HARER, J. "THE 3RD HOMOLOGY GROUP OF THE MODULI SPACE OF CURVES." DUKE MATHEMATICAL JOURNAL 63, no. 1 (June 1991): 2555. Full Text Link to Item
 Harer, JL. "Stability of the homology of the moduli spaces of Riemann surfaces with spin structure." Mathematische Annalen 287, no. 1 (1990): 323334. Full Text
 HARER, J, KAS, A, and KIRBY, R. "HANDLEBODY STRUCTURES FOR COMPLEXSURFACES." MEMOIRS OF THE AMERICAN MATHEMATICAL SOCIETY 62, no. 350 (July 1986): 1102. Link to Item
 Harer, JL. "The virtual cohomological dimension of the mapping class group of an orientable surface." Inventiones Mathematicae 84, no. 1 (February 1986): 157176. Full Text
 HARER, J. "The virtual cohomological dimension of the mapping class group of an orientable surface." Invent. Math. 84 (1986): 157176. Full Text
 Harer, J, and Zagier, D. "The Euler characteristic of the moduli space of curves." Inventiones Mathematicae 85, no. 3 (1986): 457485. Full Text
 Harer, J. "The second homology group of the mapping class group of an orientable surface." Inventiones Mathematicae 72, no. 2 (June 1983): 221239. Full Text
 HARER, JL. "The second homology group of the mapping class group of an orientable surface." Invent.Math. 72 (1983): 221239. Full Text
 HARER, J. "How to construct all fibered knots and links." Topology 21 (1982): 263280. Full Text
 HARER, J. "REPRESENTING ELEMENTS OF PI1M3 BY FIBERED KNOTS." MATHEMATICAL PROCEEDINGS OF THE CAMBRIDGE PHILOSOPHICAL SOCIETY 92, no. JUL (1982): 133138. Full Text Link to Item
 Harer, J. "How to construct all fibered knots and links." Topology 21, no. 3 (1982): 263280. Full Text
 Casson, A, and Harer, J. "Some homology lens spaces which bound rational homology balls." Pacific Journal of Mathematics 96, no. 1 (September 1, 1981): 2336. Full Text
 Harer, J. "On handlebody structures for hypersurfaces in ℂ^{3} and ℂP^{3}." Mathematische Annalen 238, no. 1 (1978): 5158. Full Text
 Bern, M, Eppstein, D, Agarwal, PK, Amenta, N, Chew, P, Dey, T, Dobkin, DP, Edelsbrunner, H, Grimm, C, Guibas, LJ, Harer, J, Hass, J, Hicks, A, Johnson, CK, Lerman, G, Letscher, D, Plassmann, P, Sedgwick, E, Snoeyink, J, Weeks, J, Yap, C, and Zorin, D. "Emerging Challenges in Computational Topology." Link to Item
 Munch, E, Turner, K, Bendich, P, Mukherjee, S, Mattingly, J, and Harer, J. "Probabilistic Fréchet Means for Time Varying Persistence Diagrams." Full Text Open Access Copy Link to Item
 Perea, J, and Harer, J. "Sliding Windows and Persistence: An Application of Topological Methods to Signal Analysis." Link to Item
 Turner, K, Mileyko, Y, Mukherjee, S, and Harer, J. "Fréchet Means for Distributions of Persistence diagrams." Open Access Copy Link to Item

 Teaching & Mentoring

Recent Courses
 Scholarly, Clinical, & Service Activities

Presentations & Appearances
 Inferring Control from Topology & Data, AFOSR Annual Review. December 17, 2013 2013
 Topological Data Analysis. July 1, 2013 2013
 Finding Gene Regulatory Networks and Their Parameters from Time Series Gene Expression Data. June 11, 2013 2013
 Learning Tracks and Group Behavior. June 1, 2013 2013
 Persistent Homology of TimeDelay Embeddings. June 1, 2013 2013
 Topological Data Analysis. June 1, 2013 2013
 Topological Data Analysis. June 1, 2013 2013
 Topological Data Analysis. May 31, 2013 2013
 DARPA BIochronicity: Biochronicity: Time, evolution, networks, and function. May 1, 2013 2013
 Topology for Tracking. March 15, 2013 2013
 Obstruction Theory and Quantum Information. March 1, 2013 2013
 Topology and Security. March 1, 2013 2013
 Topological Data Analysis,. February 1, 2013 2013
 Topological Data Analysis. February 1, 2013 2013
 Inferring Control from Topology & Data, AFOSR Annual Review. December 21, 2012 2012
 Building Regulatory Networks _x000B_for Periodic Procceses. November 1, 2012 2012
 Frechet means for persistence diagrams and vineyads. October 1, 2012 2012
 Mathematical Ideas in the Life Sciences Modeling Cellular Clocks. September 1, 2012 2012
 Topological Data Analysis. September 1, 2012 2012
 Building Gene Regulatory Networks for Periodic Processes. August 1, 2012 2012
 DARPA Biochronicity: Toward Building a Unified Biological Clock and Understanding its Response to External Factors. August 1, 2012 2012
 DARPA BIochronicity: Biochronicity: Time, evolution, networks, and function. May 8, 2012 2012
 DARPA Biochronicity KickOff: Biochronicity: Time, evolution, networks, and function. February 1, 2012 2012
 DARPA Biochronicity: Algorithms and methods of discovering periodicity in biological datasets. February 1, 2012 2012
 Time Series, Time Varying Data, Geometry and Topology. February 1, 2012 2012
 Topological & Geometric Structure in Noisy Data. February 1, 2012 2012
 Inferring Control from Topology & Data. November 29, 2011 2011
 Structure in Noisy Data. October 7, 2011 2011
 Structure in Data. September 8, 2011 2011
 Modeling Gene Networks. August 29, 2011 2011
 Networks That SelfHeal: Slime Molds in Action. May 19, 2011 2011
 Structure in Data. May 17, 2011 2011
 Statistics on Persistence Diagrams. April 9, 2011 2011
 Structure in Data. April 8, 2011 2011
 Structure in Data. April 1, 2011 2011
 Community Network _x000B_Biological Inspiration. Princeton University. December 17, 2010 2010
 Computational Topology _x000B_Methods for _x000B_Dimension Reduction. Duke Univesity. December 17, 2010 2010
 Control of the Yeast Cell Cycle. DARPA FunBio Annual Review. DARPA. December 17, 2010 2010
 FunBio_x000B_ Biologically Inspiration_x000B_for Networks. Princeton University. December 17, 2010 2010
 Inferring Control from Topology and Data. November 29, 2010 2010
 SelfHealing Networks. June 1, 2010 2010
 Network Node FunBio. January 1, 2010 2010
 Persistent Local Homology for Root Shape. October 1, 2009 2009
 Dynamics of Biological Models of Gene Regulator y Networks. August 10, 2009 2009
 Finding Cycles in Boolean Networks. June 11, 2009 2009
 Plant Root Architecture. May 27, 2009 2009
 Dynamics on Biological Networks. April 3, 2009 2009
 Persistence, Point Clouds and Local Homology. March 23, 2009 2009
 Gene Regulatory Network Clocks.. March 18, 2009 2009
 Persistence, Point Clouds and Local Homology. March 4, 2009 2009
 Biological Clocks. March 1, 2009 2009
 Gene Regulatory Network Clocks.. March 1, 2009 2009
 Persistent Homology and Applications. November 10, 2008 2008
 How do Biological Networks Keep Time. September 18, 2008 2008
 Persistence, Point Clouds and Local Homology. September 18, 2008 2008
 Persistent Intersection Homology. September 18, 2008 2008

Outreach & Engaged Scholarship

Service to the Profession
 Member of 3 person organizing committee : Workshop on Topological Data Analysis  IMA. October 2016 2016
 Consultant to RESCON, Ltd.. December 22, 2013 2013
 Program Review Committee  MBI. December 22, 2013 2013
 Review Committee for all Tulane PhD science programs. March 2013 2013
 Chairman : Board of Trustees, London Institute for Mathematical Sciences. 2013 2013
 Organizer : Workshops of the Mathematics of Cyber for NSF. 2013 2013
 Panel Member : NSF Review Panel  CDS&E program. December 18, 2012 2012
 Consultant to ARGON ST. 2011  2012 2011  2012
 Consultant to Grassroots Technology. 2009  2011 2009  2011

Service to Duke
 Committee for Vice Provost for Research. December 10, 2013 2013
 Center for Systems Biology. December 17, 2010 2010
 Thesis Committee  Andreas Pfenning  CBB. December 17, 2010 2010
 Thesis Committee  Jacob Frelinger  CBB. December 17, 2010 2010
 Thesis Committee  Ying Zheng CS. December 17, 2010 2010
 CBB Admissions Committee. December 17, 2008  July 1, 2012 2008  2012
 CBB Advisory Comittee. December 17, 2008  July 1, 2012 2008  2012
 Center for Systems Biology Steering Committee. December 12, 2008 2008
 Computational Biology and Bioinformatics PhD Program. October 25, 2008  July 1, 2012 2008  2012
 Modeling Biological Systems Undergraduate Certificate. October 25, 2008  July 1, 2011 2008  2011
 Nescent Director Search Committee. October 25, 2008 2008
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