John Harer, Professor

Contact Info:

Office Location:	207 Physics
Office Phone:	(919) 660-2845
Email Address:

Teaching (Fall 2009):

• CBB 210.01, COMP BIO SEMINAR

  Bio Sci 113, M 10:20 AM-12:00 PM

• MATH 214S.01, MODELING BIO SYSTEMS Synopsis

  Physics 205, TuTh 11:40 AM-12:55 PM

• CBB 210S.01, COMP BIO SEMINAR

  French Sci 4233, M 10:20 AM-12:00 PM

Education:

PhD	University of California, Berkeley	1979
BS	Haverford College	1974

Specialties:

Topology
Geometry
Applied Math

Research Interests: Computational Topology, Computational Biology, Algorithms

Current projects: Systems Biology, Computational Topology, Geometric Image Analysis

Professor Harer's primary research is in the use of geometric, combinatorial and computational techniques to study a variety of problems in shape recognition, image segmentation, plant root architecture, biological networks and gene expression.

Areas of Interest:

Computational Biology
Computational Topology
Algorithms

Curriculum Vitae

Current Ph.D. Students   (Former Students)

• Michael Jenista  
• Aubrey HB  

Postdocs Mentored

• Yuriy Mileyko (2005 - 2011)  

Recent Publications   (More Publications)

1. D. Cohen-Steiner, H. Edelsbrunner, J. Harer and D. Morozov., Persistent homology for kernels, images, and cokernels., Proc. Sympos. Discret Alg. (Accepted, 2009) [available here]  [abs]
2. P. Bendich, J. Harer and H. King, Persistent Intersection Homology (Preprint, 2008)
3. Mehak Aziz, Siobhan M. Brady, David Orlando, Appu Kuruvilla, Scott Spillias, José R. Dinneny, Terri A. Long, John Harer, Uwe Ohler, Philip N. Benfey, Gene Expression Clustering Analysis: How to Choose the Best Parameters and Clustering Algorithm (Preprint, 2008)  [abs]
4. A. HB and J. Harer, Persistent Steifel Whitney Classes (Preprint, 2008)  [abs]
5. D. Cohen-Steiner, H. Edelsbrunner, J. Harer and Y. Mileyko., Lipschitz functions have L_p-stable persistence., Foundations of Computional Mathematics (Accepted, 2008) [available here]  [abs]

Recent Grant Support

• GEPR: Genome-wide analysis of root traits, National Science Foundation, NSF-DBI-0820624, 2008/09-2012/08.      
• Duke Center for Systems Biology, NIH, 2007/07-2012/06.      
• Data Acquisition, Processing and Modeling of Morphogenesis in 4D, NSF, 0714796, 2006/07-2012/06.      
• Doctoral Program in Management and Analysis of Large Data Acquired from Sensors, Department of Education, P200A070505, 2007/08-2010/08.      
• Fundamentals of Biology, Defense Advanced Research Projects Agency, 2008/07-2009/07.      
• Topological Methods for the Analysis of High-dimensional Data Sets and 3D Object Recognition, DARPA, 2005/01-2008/12.      
• TRPGR Genomic Approaches to Identify Genes for Root System Architecture Traits, National Science Foundation, DBI-0606873, 2006/08-2008/07.      
• STTR Phase I: Representation and Visualization of Plant Genotypic, Phenotypic,and Environmental Relationships, NSF IIP, 0637869, 2007/01-2007/12.      
• Representation and Visualization of Plant Genotypic, Phenotypic and Environmental Relationships, Phenotype Screening Corporation, 2007/01-2007/10.      
• Genomic Approaches to Identify Genes for Root System Architecture Traits, NSF DBI, 0606873, 2006/08-2007/07.      
• Genome-Wide Analysis of Root Traits, National Science Foundation, 2009/01.