Jacob Hendricks
jacob.g.hendricks (at) gmail (dot) com

Contact

Jacob Hendricks
Assistant Professor
email: jacob.g.hendricks (at) gmail (dot) com
Department of Computer Science and Information Systems
University of Wisconsin--River Falls, River Falls, WI

Research Interests

My interests are two-fold. First, I am interested in the theoretical modeling of nanoparticles with the goal of understanding systems in which simple local interactions lead to complex global behaviors and/or structures. Studying such systems may not only contribute to a better understanding of complexities that arise in nature but also aid in the development of nanotechnologies. Second, I am interested in the computational modeling of nanoparticles. With the help of my collaborators, I am working on software capable of simulating the molecular dynamics of DNA-functionalized nanoparticle building blocks.

Education

I received my PhD in Computer Science from the University of Arkansas in May 2015. My advisor was Matthew Patitz. I also hold an MA in Mathematics from the University of Texas and a BS in Mathematics from the University of Arkansas.

Experience

Post-doctoral Research Associate Bio/Nano Technology Group Department of Biological & Agricultural Engineering Institute for Nanoscience & Engineering University of Arkansas, Fayetteville, AR, USA, Summer 2015

Refereed Conference Papers

• Universal Simulation of Directed Systems in the abstract Tile Assembly Model Requires Undirectedness, Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers. Proceedings of the 57th Annual IEEE Symposium on Foundations of Computer Science (FOCS 2016), (October 9-11, 2016, New Brunswick, New Jersey), pp. 800-809.
• Hierarchical Self-Assembly of Fractals with Signal-Passing Tiles (extended abstract), Jacob Hendricks, Meagan Olsen, Matthew J. Patitz, Trent A. Rogers, and Hadley Thomas. Proceedings of the 22nd International Conference on DNA Computing and Molecular Programming (DNA 22), (September 4-8, 2016, Ludwig-Maximilians-Universität, Munich, Germany), pp. 82-97.
• Computing in continuous space with self-assembling polygonal tiles, Oscar Gilbert, Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers. Proceedings of the ACM-SIAM Symposium on Discrete Algorithms (SODA 2016), (Arlington, VA, USA, January 10-12, 2016), to appear.
• The Simulation Powers and Limitations of Higher Temperature Hierarchical Self-Assembly Systems, Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers. Proceedings of the 7th International Conference on Machines, Computations and Universality (MCU'15), (9-11 September, 2015, Eastern Mediterranean University, Famagusta, North Cyprus), to appear. Awarded best paper.
• Reflections on Tiles (in Self-Assembly), Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers. Proceedings of the 21st International Conference on DNA Computing and Molecular Programming (DNA 21), (August 17-21, 2015, Harvard University, Cambridge, MA, USA.), to appear.
• Replication of arbitrary hole-free shapes via self-assembly with signal-passing tiles (extended abstract), Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers. Proceeding of the 14th International Conference on Unconventional Computation and Natural Computation (UCNC 2015), (University of Auckland, New Zealand, 31 August - 4 September, 2015), to appear.
• Universal Computation with Arbitrary Polyomino Tiles in Non-Cooperative Self-Assembly, Sándor P. Fekete, Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers, Robert T. Schweller. Proceedings of the ACM-SIAM Symposium on Discrete Algorithms (SODA 2015), (San Diego, CA, USA, January 4-6, 2015), pp. 148-167.
• Doubles and Negatives are Positive (in Self-Assembly), Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers. Proceeding of Unconventional Computation and Natural Computation 2014 (UCNC 2014), (University of Western Ontario, London, Ontario, Canada, July 14-18, 2014), pp. 190-202.
• The Power of Duples (in Self-Assembly): It's Not So Hip To Be Square, Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers, Scott M. Summers. Proceedings of the 20th International Computing and Combinatorics Conference (COCOON 2014), (Atlanta, GA, USA, August 4-6, 2014), pp. 215-226.
• On the Equivalence of Cellular Automata and the Tile Assembly Model, Jacob Hendricks and Matthew J. Patitz. Proceedings of Machines, Computations and Universality (MCU 2013), (University of Zürich, Switzerland, September 9-12, 2013), pp. 167-189.
• Signal Transmission Across Tile Assemblies: 3D Static Tiles Simulate Active Self-Assembly by 2D Signal-Passing Tiles, Jacob Hendricks, Jennifer E. Padilla, Matthew J. Patitz, and Trent A. Rogers. Proceedings of the 19th International Conference on DNA Computing and Molecular Programming (DNA 19), (Arizona State University, Tempe, AZ, USA, September 22-27, 2013), Lecture Notes in Computer Science, Volume 8141, 2013, pp 90-104.

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Journal Papers

• The power of duples (in self-assembly): It's not so hip to be square, Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers, Scott M. Summers. Theoretical Computer Science (TCS), special issue of invited papers from the 20th International Computing and Combinatorics Conference (COCOON 2014), DOI: 10.1016/j.tcs.2015.12.008.
• Doubles and Negatives are Positive (in Self-Assembly), Jacob Hendricks, Matthew J. Patitz, Trent A. Rogers. Natural Computing, special issue of invited papers from 13th International Conference on Unconventional Computation and Natural Computation (UCNC 2014), to appear. (arxiv version here)
• Signal transmission across tile assemblies: 3D static tiles simulate active self-assembly by 2D signal-passing tiles, Tyler Fochtman, Jacob Hendricks, Jennifer E. Padilla, Matthew J. Patitz, Trent A. Rogers. Natural Computing, June 2014, pp. 1-14 (arxiv version here)

Referee Work

I have reviewed papers for the following conferences and Journals:

• IEEE Nanomed
• 19th International Conference on DNA Computing and Molecular Programming (DNA 19)
• Machines, Computations and Universality
• Natural Computing

Committee Work

• IEEE Nanomed (Technical Program Committe)

Co-Authors

• Matthew Patitz - Assistant Professor of Computer Science and Computer Engineering at the University of Arkansas
• Trent Rogers - PhD student in Computer Science at the University of Arkansas
• Tyler Fochtman - Masters student in Computer Science at the University of Arkansas
• Sándor Fekete - Professor at University of Technology, Braunschweig
• Jennifer E. Padilla - Assistant Research Professor at Boise State
• Robert T. Schweller - Associate Professor of Computer Science at the University of Texas - Pan American
• Scott M. Summers - Assistant Professor of Computer Science at the University of Wisconsin--Oshkosh
• Jin-Woo Kim - Associate Professor of Biological Engineering at the University of Arkansas
• Russell Deaton - Department Chair and Kanuri Professor of Engineering at the University of Memphis
• Haewook Han - Department of Electrical Engineering, Pohang University of Science & Technology (POSTECH), Pohang, Korea.
• Charles W. Armstead - Masters Student in the Biological Engineering Department at the University of Arkansas
• Joseph Batta-Mpouma - PhD Student in the Biological Engineering Department at the University of Arkansas