Resume also available in:  PDF.

• Emplyment
• Education and professional preparation
• Awards and fellowships
• Publications
• Invited lectures
• Funding
• Teaching experience
• Students supervised
• Conference and workshop presentations
• Special and volunteer activities

Employment

Present	Assistant Professor, Department of Computer Science, University of Illinois, Chicago Adjunct Professor, Department of Bioengineering, University of Illinois, Chicago
2004-2005	NSF Postdoctoral Fellow, Center for Discrete Mathematics and Theoretical Computer Science (DIMACS)
2002-2004	NSF Postdoctoral Fellow, Department of Computer Science, University of New Mexico and Laboratory for High-Performance Algorithm Engineering and Computational Molecular Biology,
2001	Visiting Lecturer, Department of Computer Science, University of Illinois, Urbana-Champaign, for the following courses: CS358: Numerical Linear Algebra CS273: Introduction to Theory of Computation
2000	Research assistant, Sandia National Laboratory
1996-1998	Teaching assistant, Department of Computer Science, University of Illinois, Urbana-Champaign, for the following courses: CS350: Numerical Analysis CS373: Combinatorial Algorithms CS173: Discrete Mathematical Structures CS101: Introduction to Computer Science
1995-1996	Research programmer, Geographic Modeling Lab, University of Illinois, Urbana-Champaign Development and implementation of a framework for the user-computer interaction process, specifically for a geographic ecological modeling expert system with a diverse community of users
1994-1995	Geographic Information Systems programmer, Malam Systems, Jerusalem, Israel.
1993-1994	Geographic Information Systems programmer and administrator, Hebrew University Geographic Information Systems Center, Jerusalem, Israel Research programmer & System Administrator, Ecology, Systematics and Evolution Department, Hebrew University, Jerusalem, Israel
1992-1993	Instructor Youth Science Center of the Hebrew University, Jerusalem, Israel

Education and Professional Preparation

2004-2005	Center for Discrete Mathematics and Theoretical Computer Science (DIMACS) NSF Postdoctoral Fellow Computational epidemiology and population biology Advisors: Simon A. Levin (Princeton) and S. Muthukrishnan (Rutgers)
2002-2004	University of New Mexico NSF Postdoctoral Fellow Computational methods for controlled breeding programs and phylogeny reconstruction Advisors: Bernard M. E. Moret, David A. Bader
1996-2002	University of Illinois, Urbana-Champaign Ph.D. in Computer Science, May 2002 Thesis: Multichannel communication and graph vertex labeling,ps,pdf Advisor: Edward M. Reingold (my math genealogy)
1991-1995	Hebrew University, Jerusalem, Israel B.Sc., Computer Science and Mathematics (double major), July 1995

Awards and Honors

• NSF Faculty Early CAREER Award, 2008-2013
• UIC CoE Advisor Award, 2007
• NSF Postdoctoral Fellowship, 2004-2005
• NSF Postdoctoral Fellowship, 2002-2004
• NSF Graduate Fellowship, 1998-2000
• Outstanding Graduate Student Service Award, 2001, 2002
• Mavis Memorial Fund Scholarship, 2000-2001
• C.W. Gear Outstanding Graduate Student Award, 2000
• SIAM student conference travel award, 2000

Publications

Journals:

• T.Y. Berger-Wolf, S.I. Sheikh, B. DasGupta, M.V. Ashley, I.C. Caballero, W. Chaovalitwongse, S.L. Putrevu
  "Reconstructing Sibling Relationships in Wild Populations"
  Bioinformatics, 23(13), i49--i56.

• Berger-Wolf, T.Y., Cris Moore and Jared Saia
  "A computational approach to animal breeding"
  Journal of Theoretical Biology, 244(3), Feb 2007, 433--439. DOI: 10.1016/j.jtbi.2006.08.028

• Chaovalitwongse, W., T.Y. Berger-Wolf, B. DasGupta, and M. V. Ashley
  "Set covering approach for reconstruction of sibling relationships"
  Optimization Methods and Software (Special Issue on Systems Analysis, Optimization and Data Mining in Biomedicine)}, 22(1), Feb 2007, 11--24. DOI: 10.1080\/10556780600881829.

• Berger-Wolf, T.Y., William E. Hart, and Jared Saia,
  "Discrete Sensor Placement Problems in Distribution Networks"
  Journal of Mathematical and Computer Modelling, 42 (13), Dec 2005, 1385-1396

• Berger-Wolf, T.Y. and E. M. Reingold,
  "Index assignment for multichannel communication under failure"
  IEEE Transactions on Information Theory, 48(10), Oct 2002, 2656-2668

• C. Tantipathananandth, T.Y. Berger-Wolf, and D. Kempe
  "A Framework For Community Identification in Dynamic Social Networks"
  Proceedings of the 13th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, August 2007, San Jose, CA, USA

• T.Y. Berger-Wolf, S.I. Sheikh, B. DasGupta, M.V. Ashley, I.C. Caballero, W. Chaovalitwongse, S.L. Putrevu
  "Reconstructing Sibling Relationships in Wild Populations"
  Proceedings of the 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), July 2007, Vienna, Austria [same as Bioinformatics publication in journals]

• M. Lahiri and T. Y. Berger-Wolf
  "Structure Prediction in Temporal Networks using Frequent Subgraphs"
  IEEE Symposium on Computational Intelligence and Data Mining (CIDM), April, 2007, Honolulu, Hawaii

• S. Sheikh, T. Y. Berger-Wolf, W. Chaovalitwongse, B. DasGupta, and M. Ashley
  "Reconstructing Sibling Relationships from Microsatellite Data"
  European Conf. on Computational Biology (ECCB), Jan 2007, Eilat, Israel

• M. Laifenfeld, A. Trachtenberg, and T.Y. Berger-Wolf
  "Identifying Codes and the Set Cover Problem"
  Proceedings of the 44th Annual Allerton Conference on Communication, Control, and Computing, September 2006, Allerton, IL

• T.Y. Berger-Wolf and J. Saia
  "A framework for analysis of dynamic social networks"
  Proceedings of the 12th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, August 2006, Philadelphia, PA, USA, 523--528

• Berger-Wolf, T.Y., Bhaskar DasGupta, Wanpracha Chaovalitwongse and Mary V. Ashley,
  "Combinatorial Reconstruction of Sibling Relationships"
  Proceedings of the 6th International Symposium on Computational Biology and Genome Informatics (CBGI 05), Utah, July 21 - 26, 2005, pp. 1252-1255

• Berger-Wolf, T.Y.
  "Online Consensus and Agreement of Phylogenetic Trees"
  4th Workshop on Algorithms in Bioinformatics (WABI2004), Bergen, Norway, September 14 - 17, 2004

• Berger-Wolf, T.Y. and E. M. Reingold,
  "Optimal multichannel communication under failure",
  Proceedings, SODA 99.

• Invited book review of "Bioconsensus" (DIMACS Series in Discrete Mathematics and Theoretical Computer Science, Vol. 61) edited by M. F. Janowitz, F.-J. Lapointe, F. R. McMorris, B. Mirkin, and F. S. Roberts
  Journal of Systematic Biology, 53(3), June 2004, 515 - 517

• Habiba and {\bf T.~Y.~Berger-Wolf}. ``Maximizing the Extent of Spread in a Dynamic Network.'' {\em DIMACS Technical Report, 2007-20, 2007}
• Habiba, C.~Tantipathananandh, and {\bf T.~Y.~Berger-Wolf}. "Betweenness Centrality Measure in Dynamic Networks." {\em DIMACS Technical Report, 2007-19, 2007}
• A Framework for Analysis of Dynamic Social Networks
  DIMACS Technical Report 2005-28, July 2005
  with Jared Saia

• Critical Groups in Dynamic Social Networks
  DIMACS Technical Report 2005-26, July 2005
  with Jared Saia
  Submitted.
  

• An Experimental Evaluation of Phylogenetic Consensus Methods
  Technical Report TR-CS-2003-19, University of New Mexico
  with Tiffani Williams, Bernard Moret, and Tandy Warnow

• The Relationship Between Maximum Parsimony Scores and Phylogenetic Tree Topologies
  Technical Report TR-CS-2004-04, Univeristy of New Mexico
  with Tiffani Williams, Bernard Moret, Usman Roshan, and Tandy Warnow

• Hopkins, L.D., Johnston, D.M., Berger-Wolf, T.Y., Ellis, C., Henne, L.,
  Assessing the Effects of Ecosystem Disturbance on Biodiversity in the Arid and Semi-arid Environments of the American Southwest,
  Design Report for a Geographical Modeling System, in partial fulfillment of contract #DACA88-95-C0019, 1997, UIUC.

Conference and Workshop Presentations:

Jan 2007	"Reconstructing Sibling Relationships from Microsatellite Data" "A Framework for Analysis of Dynamic Social Networks" (poster) European Conference on Computational Biology (ECCB), Eilat, Israel
Aug 2006	"A Framework for Analysis of Dynamic Social Networks" ACM SIGKDD International Conference, Philadelphia, PA
Aug 2006	"A Computational Framework for Analysis of Dynamic Social Structures" (poster) 14th Annual International Conference on Intelligent Systems in Molecular Biology, Fortaleza, Brazil
Jul 2006	"Analysis of Dynamic Social Networks" Microsoft Research Faculty Summit
Jun 2006	"Combinatorial Dynamics of Population Biology" (Invited speaker) SIAM Conference on Discrete Mathematics, Victoria, British Columbia, Canada}
Oct 2005	"A Framework for Analysis of Dynamic Social Networks" (Invited speaker) American Mathematical Society Southeast Section Meeting, Special Session on Discrete Models in Biology, Johnson City, TN
May 2005	"Combinatorial Reconstruction of Sibling Groups" (poster), 9th Annual International Conference on Research in Computational Molecular Biology (RECOMB), Boston, MA
Sep 2004	"Online Consensus", 4th Workshop on Algorithms in Bioinformatics (WABI), Bergen, Norway
Jun 2004	"Computational Methods for Comparing Controlled Animal Breeding Strategies", Computational and Mathematical Population Dynamics, Trento, Italy
Jun 2003	"Comparison of Phylogenetic Consensus Methods", Evolution 2003 conference, Chico, CA
Aug 2002	"Spirals, grids, and herringbones", 11th SIAM Conference on Discrete Mathematics, San Diego, CA
Dec 2000	"Bandwidth of Products of Cliques", Midwest Theory Day, Chicago, IL
Jun 2000	"The Width and Length of Graph Products", 10th SIAM Conference on Discrete Mathematics, Minneapolis, MN
Aug 1999	"Optimal Multichannel Communication Under Failure", poster Dan Kleitman's 65th Birthday Celebration Conference, MIT, Cambridge, MA
Jan 1999	"Optimal Multichannel Communication Under Failure" 10th Annual ACM-SIAM Symposium on Discrete Algorithms, Baltimore, MD

Invited Lectures

Feb 2007	"A Framework for Analysis of Dynamic Social Networks", Department of Computer Science, Texas A&M University
Oct 2006	"A Framework for Analysis of Dynamic Social Networks", Department of Computer Science, University of Southern California
Sep 2006	"A Framework for Analysis of Dynamic Social Networks", Database and Information Systems Seminar, UIUC
Oct 2005	"A Framework for Analysis of Dynamic Social Networks", Talk Series on Networks and Complex Systems, Indiana University
Sep 2005	"A Framework for Analysis of Dynamic Social Networks", Department of Computer Science, Uniersity of Toronto
Jul 2005	"Who's Company? Identifying Persistent Social Groups", Researce Experience for Undergraduates at DIMACS
Apr 2005	"Who's Company? Identifying Persistent Social Groups", Celebration of Women in Computing, University of Illinois, Urbana-Champaign
Oct 2004	"Reconstructing Phylogenetic Trees: How Good Is Good Enough?", Symposium on Computational Science of Biomolecules: Applications in Medicine and Therapeutics, University of Illinois, Chicago Department of Computer Science, Illinois Insitute of Technology
Mar 2004	"How to See a Tree for a Forest? Combining Phylogenetic Trees: Reasons, Methods, and Consequences", Department of Computer Science, George Washington University Department of Computer Science, University of Illinois, Chicago School of Computer Science, University of Central Florida
Nov 2003	"Computational Phylogenetic Methods for Heterogeneous Data", Department of Computer Science and Engineering, University of Connecticut
Oct 2003	"Combinatorial Problems in Computational Biology", Microsoft Research, Redmond, WA
Dec 2002	"Controlled Breeding Problem", Department of Computer Science, University of Illinois, Urbana-Champaign
Apr 2002	"Multichannel Communication and Graph Vertex Labeling", Department of Computer Science, University of Southern California
Nov 2001	"Bandwidth of Cartesian Products of Cliques", Department of Mathematics, University of Illinois, Urbana-Champaign
Mar 2001	"Multichannel Communication and Vertex Numbering of Graph Products", AT&T Shannon Laboratory, Florham Park, NJ T. J. Watson Research Center, IBM, Yorktown Heights, NY Bell Labs, Lucent Technologies, Murray Hill, NJ
Nov 2000	"Graph Vertex Ordering and Integer Isoperimetric Problems", Hebrew University, Jerusalem, Israel

Fudning:

• NSF Grant IIS-0612044, Collaborative Research: SEI: Computational Methods for Kinship Reconstruction, $608,205, 2006-2009 (PI: T.Y. Berger-Wolf, co-PIs: M. V. Ashley, B. DasGupta, W. Chaovalitwongse)
• Microsoft award 14936, Computational Tools for Population Biology, $91,000, 2006-2007

Students Supervised:

• Mayank Lahiri, Ph.D. student, UIC, expected graduation 2010
• Habiba, Ph.D. student, UIC, expected graduation 2010
• Saad Sheikh, Ph.D. student, UIC, expected graduation 2010
• Chayant Tantipathananadh, Ph.D. student, UIC, expected graduation 2012

• Chayant Tantipathananadh, M.S. student, UIC, graduated in May 2007. Thesis: Community Identification in Dynamic Social Networks Using Generalized Coloring
• Andrea Franchescini, M.S. student, UIC, graduated in May 2007. Thesis: A software architecture for the analysis of genomic protein family and domain controlled annotations
• Satya Lahari Putrevu, M.S. student, UIC, expected graduation December 2007
• Charanjith Reddy Kunduru, M.S. student, UIC, expected graduation May 2008

• Waseem Ahmad, Ph.D., UIC, expected graduation 2007. Thesis: TRIUMF: A context-aware trusted Middleware for Secure and Reliable Collaborative Computing, (Ashfaq Khokhar advisor)
• Peng Fan, Ph.D., UIC, expected graduation 2007. Thesis: Design and Analysis of Clustering Frameworks in Vehicular Ad-hoc Networks, (Peter Nelson advisor)
• Zhengdeng Lei, Ph.D., UIC, expected graduation 2007. Thesis: Genome-wide Computational Prediction of Protein Localization, (Yang Dai advisor)
• Sunghee Lee, M.S., UNM, June 2005. Thesis: Approximate Bottom Line DEE (Dead End Elimination): Hybrid Bottom Line DEE and Split DEE, (Bernard M. E. Moret advisor)
• Nicholas D. Pattengale, M. S., UNM, April 2005. Thesis: Tools for Phylogenetic Post Processing, (Bernard M. E. Moret advisor)

Service and Volunteer Activities: