Selected Publications

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Chris Bailey-Kellogg

H. Zhao, D. Verma, W. Li, Y. Choi, S.N. Fiering, C. Bailey-Kellogg, and K.E. Griswold, “Depleting T cell epitopes in lysostaphin mitigates anti-drug antibody response and enhances antibacterial efficacy in vivo”, Chem. Biol., 2015, 22:629-639.

Y. Choi, C. Hua, C.L. Sentman, M.E. Ackerman, and C. Bailey-Kellogg, "Antibody humanization by structure-based computational protein design", MAbs, 2015, 7:1-13.

R.S. Salvat, A.S. Parker, Y. Choi, C. Bailey-Kellogg, and K.E. Griswold, “Mapping the Pareto optimal design space for a functionally deimmunized biotherapeutic candidate”, PLoS Comput. Biol., 2015, 11: e1003988.

D. Verma, G. Grigoryan, and C. Bailey-Kellogg, "Structure-based design of combinatorial mutagenesis libraries", Protein Sci., 2015, 24:895-908.

I. Choi, A.W. Chung, T.J. Suscovich, et al., and G. Alter, M.E. Ackerman, and C. Bailey-Kellogg, “Machine learning methods enable predictive modeling of antibody feature:function relationships in RV144 vaccinees”, PLoS Comput. Biol., 2015, 11:e1004185.

A.W. Chung, M. Ghebremichael, H. Robinson, E. Brown, I. Choi, et al., and C. Bailey-Kellogg, M.E. Ackerman, and G. Alter, “Polyfunctional Fc-Effector Profiles Mediated by IgG Subclass Selection Distinguish RV144 and VAX003 Vaccines”, Sci. Transl. Med., 2014, 6:228ra38.

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Photograph of Devin Balkcom

Devin J. Balkcom

Yu-Han Lyu, Devin Balkcom: 
Optimal trajectories for planar rigid bodies with switching costs. 
International Journal of Robotics Research (2015)

Weifu Wang, Devin Balkcom, Amit Chakrabarti: 
A fast online spanner for roadmap construction. 
International Journal of Robotics Research (2015)

Matthew P. Bell, Weifu Wang, Jordan Kunzika, Devin Balkcom: 
Knot-tying with four-piece fixtures. 
International Journal of Robotics Research 33(11): 1481—1489 (2014)

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Andrew Thomas Campbell

See Google scholar page for my publications.

 

Amit Chakrabarti

Amit Chakrabarti

A. Chakrabarti, G. Cormode, A. McGregor, J. Thaler, and S. Venkatasubramanian. “Verifiable Stream Computation and Arthur–Merlin Communication,” (with G. Cormode, A. McGregor, J. Thaler, S. Venkatasubramanian), in Proc. 30th Ann. Conf. Comput. Complexity (CCC 2015).

A. Chakrabarti, L. K. Fleischer, C. Weibel. “When the Cut Condition is Enough: A Complete Characterization for Multiflow Problems in Series-Parallel Networks,” in Proc. 44th Ann. ACM Symp. Theory Comput. (STOC 2012) 19-26.

A. Chakrabarti and O. Regev. “An Optimal Lower Bound on the Communication Complexity of Gap-Hamming-Distance”, SIAM J. Comput.41:5 (2012) 1299-1317.

A. Chakrabarti, G. Cormode and A. McGregor. “ A Near-Optimal Algorithm for Estimating the Entropy of a Stream,” ACM Trans. Alg., 6:3 (2010) Art. 51.

A. Chakrabarti and O. Regev. “An Optimal Randomized Cell Probe Lower Bound for Approximate Nearest Neighbor Searching,” SIAM J. Comput.39:5 (2010) 1919–1940.

A. Chakrabarti, S. Khot, and Y. Shi. “Evasiveness of Subgraph Containment and Related Properties,” SIAM J. Comput.31:3 (2002) 866-875.

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Thomas H. Cormen

Thomas H. Cormen

Cormen, T H, C E Leiserson, R L Rivest, and C Stein, Introduction to Algorithms, third edition, The MIT Press, (2009).

Cormen, T H, Algorithms Unlocked, The MIT Press, (2013).

Cormen, T H, and J C Fan, "Dense Gray Codes, or Easy Ways to Generate Cyclic and Non-Cyclic Gray Codes For the First n Whole Numbers," 54th Annual Allerton Conference on Communication, Control, and Computing, October 2016.

Fan, J C, and T H Cormen, "Dense Gray Codes in Mixed Radices," 2017 IEEE Symposium on Information Theory (ISIT), June 2017.

Chaudhry, G, and T H Cormen, “Slabpose Columnsort: A New Oblivious Algorithm for Out-of Core Sorting on Distributed-memory Clusters,” Algorithmica, 45:3 (July 2006) 483-508.

Cormen, T H, and D M Nicol, "Performing Out-of-core FFTs on Parallel Disk Systems," Parallel Computing, 24:1 (January 1998) 5-20.

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Robert Lewis (Scot) Drysdale, III

Robert Lewis (Scot) Drysdale, III

Rong Yang, Subhadra Srinivasan, Robert L Scot Drysdale, “Three-dimensional image-guided fluorescence using boundary element method and dual reciprocity method,” Proc. SPIE 8088, 80881U (2011); doi:10.1117/12.891432.

Robert L Scot Drysdale, “Mathematical Induction is a Recursive Technique,” Proceedings of the 42nd SIGCSE Technical Symposium on Computer Science Education, March 10-12, 2011, 269-274.

Cliff Stein, Robert L. Drysdale, and Ken Bogart, Discrete Mathematics for Computer Scientists, Addison Wesley/Prentice Hall, March 2010.

Kim B. Bruce, Robert D Cupper, and Robert L. Scot Drysdale, “A History of the Liberal Arts Computer Science Consortium and its Model Curricula,” ACM TOCE 10:1 (2010) Article 3

David P. Wagner, Robert Scot Drysdale, and Clifford Stein, “An O ( n 5/2 log n ) Algorithm for the Rectilinear Minimum Link-Distance Problem in Three Dimensions,” CGTA  42 (2009) 376-387.

Drysdale, R L S, G Rote, and A Sturm, “Approximation of an Open Polygonal Curve with a Minimum Number of Circular Arcs and Biarcs,” Computational Geometry: Theory and Applications 41:1-2 (2008) 31-47.

Aurenhammer, F, R L S Drysdale, and H Krasser, “Farthest Line Segment Voronoi Diagram,” IPL 100 (2006) 220-225.

Peter Su and Robert L. Scot Drysdale, "A Comparison of Sequential Delaunay Triangulation Algorithms," Computational Geometry - Theory and Applications 7 (1997), 362-385

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Professor Hany Farid

Hany Farid

J. Dressel and H. Farid. The Accuracy, Fairness, and Limits of Predicting Recidivism, Science Advances, 4(1):eaao5580, 2018.

H. Farid. Reining in Online Abuses. Technology and Innovation, 2018.

H. Farid. Photo Forensics, MIT Press, 2016.

O. Holmes, M.S. Banks, and H. Farid. Assessing and Improving the Identification of Computer Generated Portraits. ACM Transactions on Applied Perception, 13(2):7:1-7:12, 2016.

S. Pittala, E. Whiting, and H. Farid. A 3-D Stability Analysis of Lee Harvey Oswald in the Backyard Photo. Journal of Digital Forensics, Security and Law, 10(3): 87-98, 2015. 

E. Kee, J. O’Brien, and H. Farid. Exposing Photo Manipulation from Shading and Shadows. ACM Transactions on Graphics, 33(5):165:1-165:21, 2014.

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Amro M. Farid

Kassakian, John G and Schmalensee, Richard and Desgroseilliers, Gary and Heidel, Timothy D and Afridi, Khurram and Farid, Amro M and Grochow, Jerrold M and Hogan, William W and Jacoby, Henry D and Kirtley, James L and Michaels, Harvey G and Perez-Arriaga, Ignacio and Perreault, David J and Rose, Nancy L and Wilson, Gerald L and Abudaldah, Nabi and Chen, Minjie and Donohoo, Pearl E and Gunter, Samantha J and Kwok, P Jordan and Sakhrani, Vivek A and Wang, Jiankang and Whitaker, Andrew and Yap, Xiang Ling and Zhang, Richard Y and of Technology, Massachusetts Institute "The Future of the Electric Grid: An Interdisciplinary MIT Study". Cambridge, MA: MIT Press. 2011. pp.1--280

Annaswamy, Anuradha M. and Amin, Massoud and Demarco, Christopher L. and Samad, Tariq and Aho, Jacob and Arnold, George and Buckspan, Andrew and Cadena, Angela and Callaway, Duncan and Camacho, Eduardo and Caramanis, Michael and Chakrabortty, Aranya and Chakraborty, Amit and Chow, Joe and Dahleh, Munther and Dominguez-Garcia, Alejandro D. and Dotta, Daniel and Farid, Amro M. and Flikkema, Paul and Gayme, Dennice and Genc, Sahika and Fisa, Merce Griera i and Hiskens, Ian and Houpt, Paul and Hug, Gabriela and Khargonekar, Pramod and Khurana, Himanshu and Kiani, Arman and Low, Steven and McDonald, John and Mojica-Nava, Eduardo and Motto, Alexis Legbedji and Pao, Lucy and Parisio, Alessandra and Pinder, Adrian and Polis, Michael and Roozbehani, Mardavij and Qu, Zhihua and Quijano, Nicanor and Stoustrup, Jakob "IEEE Vision for Smart Grid Controls: 2030 and Beyond". New York NY: IEEE Standards Association. 2013. pp.1--168

Farid, Amro M. and Suh, Nam P "Axiomatic Design in Large Systems: Complex Products, Buildings and Manufacturing Systems". Berlin, Heidelberg: Springer. 2016. pp.1-340

Farid, Amro M and Jiang, Bo and Muzhikyan, Aramazd and Youcef-Toumi, Kamal "The Need for Holistic Enterprise Control Assessment Methods for the Future Electricity Grid"Renewable \& Sustainable Energy Reviews. :(1) pp. 669--685. 2015.

Lubega, William Naggaga and Farid, Amro M "Quantitative Engineering Systems Model and Analysis of the Energy-Water Nexus"Applied Energy. :(1) pp. 142-157. 2014.

Farid, Amro M. "A Hybrid Dynamic System Model for Multi-Modal Transportation Electrification"IEEE Transactions on Control System Technology (in press). :(1) pp. 1--12. 2016.

Farid, A M and McFarlane, D C "Production degrees of freedom as manufacturing system reconfiguration potential measures".Proceedings of the Institution of Mechanical Engineers, Part B (Journal of Engineering Manufacture) -- invited paper. :(B10) pp. 1301--1314. 2008.

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Gevorg Grigoryan

"Single methyl groups can act as toggle switches to specify transmembrane protein-protein interactions", L. He, H. Steinocher, A. Shelar, E. B. Cohen, E. N. Heim, B. B. Kragelund, G. Grigoryan, D. DiMaio, eLife6: e27701, 2017 [DOI].

"Sequence statistics of tertiary structural motifs reflect protein stability", F. Zheng, G. Grigoryan*, PLoS ONE12(5): e0178272, 2017 [PubMED] [DOI].

"Protein Structural Motifs in Prediction and Design", C. O. Mackenzie, G. GrigoryanCurrent Opinion in Structural Biology44: 161-167, 2017 [PubMED] [DOI].

"Design of self-assembling transmembrane helical bundles to elucidate principles required for membrane protein folding and ion transport", N. H. Joh, G. Grigoryan, Y. Wu, W. F. DeGrado, Philosophical Transactions B372(1726): 20160214, 2017 [PubMED] [DOI].

"Tertiary Alphabet for the Observable Protein Structural Universe", C. O. Mackenzie, J. Zhou, G. GrigoryanProceedings of the National Academy of Sciences113(47): E7438-E7447, 2016 [PubMED] [DOI].

"Graphene Symmetry Amplified by Designed Peptide Self-Assembly", G.-M. Mustata, Y. H. Kim*, J. Zhang, W. F. DeGrado, G. Grigoryan, M. Wanunu, Biophysical Journal110(11): 2507-2516, 2016 [DOI].

"Protein-Directed Self-Assembly of a Fullerene Crystal", K-H. Kim, D-K. Ko, Y-T. Kim, N. H. Kim, J. Paul, S-Q. Zhang, C. B. Murray, R. Acharya, W. F. DeGrado, Y. H. Kim, G. GrigoryanNature Communications7: 11429, 2016 [DOI].

"Tertiary Structural Propensities Reveal Fundamental Sequence/Structure Relationships", F. Zheng, J. Zhang, G. GrigoryanStructure23(5): 961-971, 2015 [DOI].

"Structure-based design of combinatorial mutagenesis libraries", D. Verma, G. Grigoryan, C. Bailey-Kellogg, Protein Science24(5): 895-908, 2015 [DOI].

"Computational Design and Experimental Characterization of Peptides Intended for pH-Dependent Membrane Insertion and Pore Formation", Y. Zhang, R. Bartz, G. Grigoryan, M. Bryant, J. Aaronson, S. Beck, N. Innocent, L. Klein, W. Procopio, T. Tucker, V. Jadhav, D. M. Tellers, William F. DeGrado, ACS Chemical Biology10(4): 1082-1093, 2015 [DOI].

"Computational Design of Selective Peptides to Discriminate Between Similar PDZ Domains in an Oncogenic Pathway", F. Zheng, H. Jewell, J. Fitzpatrick, J. Zhang, D. F. Mierke, G. GrigoryanJournal of Molecular Biology427: 491-510, 2015 [DOI].

"De novo design of a transmembrane Zn2+ transporting four-helix bundle", N. H. Joh, T. Wang, M. P. Bhate, R. Acharya, Y. Wu, M. Grabe, M. Hong, G. Grigoryan, W. F. DeGrado, Science, 346(6216): 1520-1524, 2014 [DOI].

"Rapid Search for Tertiary Fragments Reveals Protein Sequence-Structure Relationships", J. Zhou, G. Grigoryan, Protein Science, [DOI] in press.

"Computational Design of Selective Peptides to Discriminate Between Similar PDZ Domains in an Oncogenic Pathway", F. Zheng, H. Jewell, J. Fitzpatrick, J. Zhang, D. F. Mierke, G. Grigoryan*, Journal of Molecular Biology, 2014 [DOI].

"Design and Designability of Protein-based Assemblies", J. Zhang, F. Zheng, G. Grigoryan*, Current Opinion in Structural Biology, 27: 79-86, 2014 [DOI].

"Absolute Free Energies of Biomolecules from Unperturbed Ensembles", G. Grigoryan,Journal of Computational Chemistry34: 2726–2741, 2013 [DOI].

"Mining Tertiary Structural Motifs for Assessment of Designability", J. Zhang, G. Grigoryan, Methods in Enzymology, 523: 21-40, 2013 [DOI].

"Structural Informatics, Modeling and Design with an Open Source Molecular Software Library (MSL)", D. W. Kulp, S. Subramaniam, J. E. Donald, B. T. Hannigan, B. K. Mueller, G. Grigoryan, A. Senes, Journal of Computational Chemistry, 33(20): 1645-1661, 2012 [DOI].

"Capture and Imaging of a Prehairpin Fusion Intermediate of the Paramyxovirus PIV5", Y. H. Kim, J. E. Donald, G. Grigoryan, G. P. Leser, A. Y. Fadeev , R. A. Lamb, W. F. DeGrado, Proc. Natl. Acad. Sci. USA, 108(52): 20992-20997, 2011 [DOI].

"Computational Design of Virus-like Protein Assemblies on Carbon Nanotube Surfaces", G. Grigoryan, Y. H. Kim, R. Acharya, K. Axelrod, R. M. Jain, L. Willis, M. Drndic, J. M. Kikkawa, and W. F. DeGrado, Science, 332(6033): 1071-1076, 2011 [DOI].

"Transmembrane Communication: General Principles and Lessons from the Structure and Function of the M2 Proton Channel, K+ Channels, and Integrin Receptors", G. Grigoryan, D. T. Moore, and W. F. DeGrado, Annual Review of Biochemistry, 80: 211-237, 2011 [DOI].

"Probing Designability via a Generalized Model of Helical Bundle Geometry", G. Grigoryan and W. F. DeGrado, Journal of Molecular Biology, 405(4): 1079-1100, 2011 [PubMED] [DOI].

"Identifying and Reducing Error in Cluster Expansion Approximations of Protein Energies", S. Hahn, O. Ashenberg, G. Grigoryan, and A. E. Keating, Journal of Computational Chemistry, 31(16): 2900-2914, 2010 [PubMED] [DOI].

"Identification of bZIP Interaction Partners of Viral Proteins HBZ, MEQ, BZLF1, and K-bZIP Using Coiled-Coil Arrays", A. W. Reinke, G. Grigoryan, and A. E. Keating, Biochemistry, 49(9): 1985-1997, 2010 [PubMED] [DOI].

"Design of Protein-interaction Specificity Gives Selective bZIP-binding Peptides", G. Grigoryan, A. W. Reinke, and A. E. Keating, Nature, 458: 859-864, 2009 [PubMED] [DOI].

"Cluster-Expansion Models for Flexible-Backbone Protein Energetics", J. R. Apgar, S. Hahn, G. Grigoryan, and A. E. Keating, Journal of Computational Chemistry, 30(15): 2402-2413, 2009 [PubMED] [DOI].

"Structural Specificity in Coiled-coil Interactions", G. Grigoryan and A. E. Keating, Current Opinion in Structural Biology, 18(4): 477-483, 2008 [PubMED] [DOI].

"Modest Membrane Hydrogen Bonds Deliver Rich Results", G. Grigoryan and W. F. DeGrado, Nature Chemical Biology, 4: 393-394, 2008 [PubMED] [DOI].

"Computing van der Waals Energies in the Context of the Rotamer Approximation", G. Grigoryan, A. Ochoa, and A. E. Keating, Proteins: Structure, Function, and Bioinformatics, 68(4): 863-878, 2007 [PubMED] [DOI].

"Ultra-fast Evaluation of Protein Conformational Energies Directly from Sequence", G. Grigoryan, F. Zhou, S. R. Lustig, G. Ceder, D. Morgan and A. E. Keating, PLoS Computational Biology, 2(6): e63, 2006 [PubMED] [DOI].

"Structure-based Prediction of bZIP Partnering Specificity", G. Grigoryan and A. E. Keating, Journal of Molecular Biology, 355(5): 1125-1142, 2006 [PubMED] [DOI].

"Coarse-Graining Protein Energetics in Sequence Variables", F. Zhou, G. Grigoryan, S. R. Lustig, A. E. Keating, G. Ceder, and D. Morgan, Physical Review Letters, 95(14): 148103, 2005 [PubMED] [DOI].

"Design of a Heterospecific, Tetrameric, 21-Residue Miniprotein with Mixed alpha/beta Structure", M. H. Ali, C. M. Taylor, G. Grigoryan, K. N. Allen, B. Imperiali, and A. E. Keating, Structure, 13(2): 225-234, 2005 [PubMED] [DOI].

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Wojciech Jarosz Portrait

Wojciech Jarosz

See my full list of publications on my website.

"Balancing 3D Models with Movable Masses." Romain Prévost, Moritz Bächer, Wojciech Jarosz, Olga Sorkine-Hornung. Proceedings of the Vision, Modeling and Visualization Workshop (VMV), (to appear), October 2016.

"Reduced Aggregate Scattering Operators for Path Tracing." Adrian Blumer, Jan Novák, Ralf Habel, Derek Nowrouzezahrai, Wojciech Jarosz. Computer Graphics Forum (Proceedings of Pacific Graphics), (to appear), 35(7), October 2016.

"Nonlinearly Weighted First-order Regression for Denoising Monte Carlo Renderings." Benedikt Bitterli, Fabrice Rousselle, Bochang Moon, José A. Iglesias-Guitián, David Adler, Kenny Mitchell, Wojciech Jarosz, Jan Novák. Computer Graphics Forum (Proceedings of EGSR), 35(4), June 2016.

"Large-Scale Painting of Photographs by Interactive Optimization." Romain Prévost, Alec Jacobson, Wojciech Jarosz, Olga Sorkine-Hornung. Computers & Graphics, 55:108–117, April 2016.

"Dispersion-based Color Projection using Masked Prisms." Rafael Hostettler, Ralf Habel, Markus Gross, Wojciech Jarosz. Computer Graphics Forum (Proceedings of Pacific Graphics), 34(7), October 2015.

"Multi-Scale Modeling and Rendering of Granular Materials." Johannes Meng, Marios Papas, Ralf Habel, Carsten Dachsbacher, Steve Marschner, Markus Gross, Wojciech Jarosz. ACM Transactions on Graphics (Proceedings of SIGGRAPH), 34(4), July 2015.

"Portal-Masked Environment Map Sampling." Benedikt Bitterli, Jan Novák, Wojciech Jarosz. Computer Graphics Forum (Proceedings of EGSR), 34(4), June 2015.

"Path-space Motion Estimation and Decomposition for Robust Animation Filtering." Henning Zimmer, Fabrice Rousselle, Wenzel Jakob, Oliver Wang, David Adler, Wojciech Jarosz, Olga Sorkine-Hornung, Alexander Sorkine-Hornung. Computer Graphics Forum (Proceedings of EGSR), 34(4), June 2015.

"Residual Ratio Tracking for Estimating Attenuation in Participating Media." Jan Novák, Andrew Selle, Wojciech Jarosz. ACM Transactions on Graphics (Proceedings of SIGGRAPH Asia), 33(6), November 2014.

"Unifying Points, Beams, and Paths in Volumetric Light Transport Simulation." Jaroslav Křivánek, Iliyan Georgiev, Toshiya Hachisuka, Petr Vévoda, Martin Šik, Derek Nowrouzezahrai, Wojciech Jarosz. ACM Transactions on Graphics (Proceedings of SIGGRAPH), 33(4), July 2014.

"Fabricating Translucent Materials using Continuous Pigment Mixtures." Marios Papas, Christian Regg, Wojciech Jarosz, Bernd Bickel, Philip Jackson, Wojciech Matusik, Steve Marschner, Markus Gross. ACM Transactions on Graphics (Proceedings of SIGGRAPH), 32(4), July 2013.

"A Comprehensive Theory of Volumetric Radiance Estimation Using Photon Points and Beams." Wojciech Jarosz, Derek Nowrouzezahrai, Iman Sadeghi, Henrik Wann Jensen. ACM Transactions on Graphics (Presented at SIGGRAPH), 30(1):5:1–5:19, January 2011.

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Prasad Jayanti

Prasad Jayanti

P. Jayanti and A. Joshi. Recoverable FCFS Mutual Exclusion with Wait-Free Recovery.  In Proceedings of the International Conference on Distributed Computing (DISC), October 2017. N. Bansal, V. Bhatt, P. Jayanti, and R. Kondapally. Tight Time-Space Tradeoff for Mutual Exclusion.  In Proceedings of the 44th Annual ACM Symposium on Theory of Computing (STOC),New York, NY, May 19-22, 2012.  V. Bhatt and P. Jayanti.Constant RMR Solutions to Reader Writer Synchronization.Proceedings of the 29th Annual ACM Symposium on Principles of Distributed Computing (PODC),Zurich, Switzerland, July 25-28, 2010.
P. Jayanti.  An Optimal Multi-writer Snapshot Algorithm.  In Proceedings of the 37th Annual ACM Symposium on Theory of Computing (STOC) May 22-24, 2005 , (2005) 723-732.  P. Jayanti and S. Petrovic.Efficient and Practical Constructions of LL/SC Variables.In Proceedings of the 22nd Annual ACM Symposium on Principles of Distributed Computing (PODC),July 2003, pages 285-294.  P. Jayanti.Adaptive and Efficient Abortable Mutual Exclusion.In Proceedings of the 22nd Annual ACM Symposium on Principles of Distributed Computing (PODC),July 2003, pages 295-304.  P. Jayanti.A Time Complexity Lower Bound for Randomized Implementations of Some Shared Objects.In Proceedings of the 17th Annual ACM Symposium on Principles of Distributed Computing (PODC),June 1998.
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David Jewell

Andrew A.S., Jewell D.A., Mason R.A, Whitfield M.L., Moore J.H., Karagas M.R., Drinking-water arsenic exposure modulates gene expression in human lymphocytes from a U.S. population. Environ Health Perspect. 116(4):524-31. (2008)

Dharmasena MN, Jewell DA, Taylor RK., Development of peptide mimics of a protective epitope of Vibrio cholerae Ogawa O-antigen and investigation of the structural basis of peptide mimicry. J Biol Chem. (2007) 282(46), 33805–33816

Gaur, A.B., Jewell, D.A., Liang, Y., Ridzon, D., Moore, J.H., Chen, C., Ambros, V. and Israel, M.A., Characterization of microRNA expression levels and their biological correlates in human cancer cell lines. Cancer Research 15;67(6):2456-68. (2007)

Ambros, V, Lee, R.C., Lavanway, A., Williams, P.T., Jewell, D.A., MicroRNAs and other tiny endogenous RNAs in C. elegans. Current Biology 13(10):807-18. (2003)

Jewell, D.A., and Wilson, I.A. Structure and function of MHC class I and class II antigens. In: Molecular Immunology: Frontiers in Molecular Biology, Second Edition. B.D.Hames and D.M. Glover, Eds., Oxford University Press, Oxford, U.K., 189-211. (1996)

Lewicki, H., Tishon, A., Borrow, P., Evans, C.F., Gairin, J.E., Hahn, K.M., Jewell, D.A., Wilson, I.A., Oldstone, M.B. CTL escape viral variants. I. Generation and molecular characterization. Virology 210(1):29-40 (1995)

Jewell, D.A., Swietnicki, W., Dunn, B.M., Malcolm, B.A. Hepatitis A virus 3C proteinase substrate specificity. Biochemistry 31(34): 7862-9 (1992)

Jewell, D.A., Tu, C.K., Paranawithana, S.R., Tanhauser, S.M., LoGrasso, P.V., Laipis, P.J., Silverman, D.N. Enhancement of the catalytic properties of human carbonic anhydrase III by site- directed mutagenesis. Biochemistry 30(6):1484-90 (1991)

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Inas Khayal

Axiomatic Design Based Human Resources Management for the Enterprise Transformation of the Abu Dhabi Healthcare Labor Pool Journal of Enterprise Transformation,    2015;5(3): 162-191

Gender Differences in Real-Home Sleep of Young and Older Couples Southwest Journal of Pulmonary and Critical Care,    May    19, 2015;10(5): 289-29910.13175/swjpcc068-1

Technologically sensed social exposure related to slow-wave sleep in healthy adults Sleep and Breathing,    May 27, 2014;19: 255-26110.1007/s11325-014-1005-x

Evolution of the rainfall regime in the United Arab Emirates Journal of Hydrology,    June    6, 2014;514: 258-270

Change in BMI Accurately Predicted by Social Exposure to Acquaintances PLOS One,    November 20, 2013;8(11): p e7923810.1371/journal.pone.0079238

Identifying Close friendships in a Sensed Social Network Procedia-Social and Behavioral Sciences,    June    6, 2013;79: 18-2610.1016/j.sbspro.2013.05.054

Social fMRI: Investigating and shaping social mechanisms in the real world Pervasive and Mobile Computing,    December    2011;7(6): 643-65910.1016/j.pmcj.2011.09.004

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David Kotz

Josiah Hester, Travis Peters, Tianlong Yun, Ronald Peterson, Joseph Skinner, Bhargav Golla, Kevin Storer, Steven Hearndon, Kevin Freeman, Sarah Lord, Ryan Halter, David Kotz, and Jacob Sorber. "Amulet: An Energy-Efficient, Multi-Application Wearable Platform." In Proceedings of the ACM Conference on Embedded Networked Sensor Systems (SenSys), November 2016. ACM Press.

Kotz, David, Gunter, Carl A., Kumar, Santosh, and Weiner, Jonathan P.. "Privacy and Security in Mobile Health - A Research Agenda". IEEE Computer, 49(6):22-30, June, 2016. DOI 10.1109/MC.2016.185.

Timothy J. Pierson, Xiaohui Liang, Ronald Peterson, and David Kotz. "Wanda: securely introducing mobile devices." In IEEE International Conference on Computer Communications (INFOCOM), April, 2016.

Cory Cornelius, Ronald Peterson, Joseph Skinner, Ryan Halter, and David Kotz. "A wearable system that knows who wears it." In Proceedings of the International Conference on Mobile Systems, Applications, and Services (MobiSys), June 2014. DOI 10.1145/2594368.2594369. 

Shrirang Mare, Andre ́s Molina-Markham, Cory Cornelius, Ronald Peterson, and David Kotz. "ZEBRA: Zero-effort bilateral recurring authentication." In IEEE Symposium on Security & Privacy, May 2014. DOI 10.1109/SP.2014.51.

Shrirang Mare, Jacob Sorber, Minho Shin, Cory Cornelius, and David Kotz. "Hide-n-Sense: preserving privacy efficiently in wireless mHealth." Mobile Networks and Applications (MONET), pages 1–14, June 2013, DOI 10.1007/s11036-013-0447-x.

Cory Cornelius and David Kotz. “Recognizing whether sensors are on the same body.” Journal of Pervasive and Mobile Computing, June 2012, DOI 10.1016/j.pmcj.2012.06.005.

Aarathi Prasad, Jacob Sorber, Timothy Stablein, Denise Anthony, and David Kotz. “Understanding sharing preferences and behavior for mHealth devices.” In Workshop on Privacy in the Electronic Society (WPES). ACM Press, October 2012, DOI 10.1145/2381966.2381983.

 

 

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Qiang Liu

Qiang Liu

Liu, Q., Peng, J., Ihler A., & Fisher III, J. (2015); Estimating the Partition Function by Discriminance Sampling. In Proceedings of Uncertainty in Artificial Intelligence (UAI) 2015.

Zhou, D., Liu, Q., Platt, J., & Meek, C. (2014). Aggregating ordinal labels from crowds by minimax conditional entropy. In Proceedings of the 31st International Conference on Machine Learning (ICML-14) (pp. 262-270).

Liu, Q., & Ihler, A. (2013). Variational algorithms for marginal MAP. The Journal of Machine Learning Research, 14(1), 3165-3200.

Liu, Q., Peng, J., & Ihler, A. T. (2012). Variational inference for crowdsourcing. In Advances in Neural Information Processing Systems (pp. 692-700).

Liu, Q., & Ihler, A. (2012). Distributed parameter estimation via pseudo-likelihood. In International Conference on Machine Learning (ICML) 2012.

Liu, Q., & Ihler, A. T. (2011). Learning scale free networks by reweighted l1 regularization. In International Conference on Artificial Intelligence and Statistics (pp. 40-48).

 

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Daniel Rockmore

D. Rockmore (ed.). (2017). What are the Arts and Sciences? A Guide for the Curious. UPNE.  

C. Fang, N. Foti, D. Krakauer, and T. Ginsburg, D. Rockmore, The Cultural Evolution of National Constitutions, Journal of the Association for Information Science and Technology. To appear, 2017. Online  https://papers.ssrn.com/sol3/papers.cfm?abstract id=2739824.  

D. Maslen, D. N. Rockmore, and S. Wolff. (2016). The Efficient Computation of Fourier Transforms on Semisimple Algebras. Journal of Fourier Analysis and Applications. DOI: 10.1007/s00041-017-9555-5.  

S. Brocklebank, S. Pauls, D. Rockmore, and T. Bates. (2015). A Spectral Clustering Approach to the Structure of Personality: Contrasting the FFM and HEXACO Models, Journal of Research in Personality, 57, 100109.  

F. Caccioli, D. Farmer, N. Foti, and D. Rockmore. (2015).Overlapping Portfolios, Contagion, and Financial Stability. J. Econ. Dynamics and Control, Volume 51, pp. 50–63.  

 

Rockmore, D, J D Van Horn, S T Grafton, and M S Gazzaniga, “Sharing Neuroimaging Studies of Human Cognition,” Nature Neuroscience , 7 (2004) 473-481.

D. Rockmore, S. Lyu and H. Farid. (2004).  A Digital Technique for Art Authentication. PNAS, Proceedings of the National Academy of Sciences, 101:49 (2004) 17006-17010. 

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Sean W. Smith

Sean W. Smith.
The Internet of Risky Things: Trusting the Devices that Surround Us.
O'Reilly. 2017.

P. Anantharaman, K. Palani, D. Nicol, S.W. Smith.
"I am Joe's Fridge: Scalable Identity in the Internet of Things"
IEEE International Conference on Internet of Things.
December 2016.

S. Bratus, M. Patterson, A. Crain, S. Hallberg, S.W. Smith.
"Implementing a Vertically Hardened DNP3 Control Stack for Power Applications."
ACSAC Industrial Control System Security Workshop.
December 2016.

S.W. Smith, R. Koppel, J. Blythe, V. Kothari.
"Mismorphism: a Semiotic Model of Computer Security Circumvention"
International Symposium on Human Aspects of Information Security and Assurance (HAISA 2015).
July 2015

V. Kothari, J. Blythe, S.W. Smith, R. Koppel.
"Measuring the Security Impacts of Password Policies Using Cognitive Behavioral Agent-Based Modeling."
ACM Symposium and Bootcamp on the Science of Security (HotSoS).
April 2015.

P. Johnson, S. Bratus, S.W. Smith.
"Protecting Against Malicious Bits On the Wire: Automatically Generating a USB Protocol Parser for a Production Kernel."
Annual Computer Security Applications Conference (ACSAC)
December 2017

S.W. Smith.
"Security and Cognitive Bias: Exploring the Role of the Mind."
IEEE Security and Privacy.
September/October 2012. 10 (5): 75--78. September/October 2012.

Sean W. Smith, John C. Marchesini.
The Craft of System Security.
Addison-Wesley. 2007.

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Lorenzo Torresani

G. Bertasius, J. Shi, and L. Torresani. “High-for-Low and Low-for-High: Efficient Boundary Detection from Deep Object Features and its Applications to High-Level Vision,” in IEEE International Conference On Computer Vision, ICCV, 2015.

D. Tran, L. Bourdev, R. Fergus, L. Torresani, and M. Paluri. “Learning Spatiotemporal Features with 3D Convolutional Networks,” in IEEE International Conference On Computer Vision, ICCV, 2015.

G. Bertasius, J. Shi, and L. Torresani. “DeepEdge: A Multi-Scale Bifurcated Deep Network for Top-Down Contour Detection,” IEEE Conference On Computer Vision and Pattern Recognition, CVPR, pages 4380-4389, 2015.

S. Rodriguez-Vaamonde, L. Torresani and A.W. Fitzgibbon. “What can pictures tell us about web pages? Improving document search using images,” IEEE Transactions on Pattern Analysis and Machine Intelligence, TPAMI, 37(6):1274-1285, June 2015.

A. Bergamo, and L. Torresani, “Classemes and Other Classifier-based Features for Efficient Object Categorization,” IEEE Trans. on PAMI. Oct. 2014. Vol. 36, No. 10, pp. 1988-2001.

D. Tran, and L. Torresani. “EXMOVES: Classifier-based Features for Scalable Action Recognition,” International Conference on Learning Representations, ICLR, 2014.

M.H. Nguyen, L. Torresani, F. de la Torre, and C. Rother, “Learning Discriminative Localization from Weakly Labeled Data.” Pattern Recognition, 47(3):1523-1534, March 2014.

A. Chandrashekar, L. Torresani, and R. Granger, “Learning what is where from unlabeled images: joint localization and clustering of foreground objects.” Machine Learning Journal, Springer, Feb. 2014.

L. Torresani, V. Kolmogorov, and C. Rother. “A Dual Decomposition Approach to Feature Correspondence,” IEEE Transactions on Pattern Analysis and Machine Intelligence, TPAMI, 35(2):259-271, Feb. 2013.

A. Bergamo, L. Torresani. "Meta-class features for large-scale object categorization on a budget," IEEE Conference on Computer Vision and Pattern Recognition , (2012), 3085-3092.

Bergamo, A, L Torresani, and A Fitzgibbon, “PiCoDes: Learning a Compact Code for Novel-Category Recognition,” Advances in Neural Information Processing Systems 24 , (2011), 2088-2096.

Rastegari, M, C Fang, and L Torresani, “Scalable object-class retrieval with approximate and top-k ranking,” IEEE International Conference on Computer Vision , (2011), 2659-2666.

Bergamo, A, and L Torresani, “Exploiting weakly-labeled Web images to improve object classification: a domain adaptation approach,” Advances in Neural Information Processing Systems 23 , (2010), 23:181– 189.

Torresani, L, M Szummer, and A Fitzgibbon, “Efficient Object Category Recognition Using Classemes,” European Conference On Computer Vision , (2010), 1:776–789.

Torresani, L, M Szummer, and A Fitzgibbon. “Learning query-dependent prefilters for scalable image retrieval,” IEEE Conference On Computer Vision and Pattern Recognition , (2009), 2615–2622.

Torresani, L, A Hertzmann, and C Bregler, “Non-Rigid Structure-From-Motion: Estimating Shape and Motion with Hierarchical Priors,” IEEE Transactions on Pattern Analysis and Machine Intelligence , 30:5 (2008), 878-892.

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Emily Whiting

E. Whiting, N. Ouf, L. Makatura, C. Mousas, Z. Shu and L. Kavan. Environment-Scale Fabrication: Replicating Outdoor Climbing Experiences. ACM CHI Conference on Human Factors in Computing Systems (Paper), 2017.

X. Zhang, X. Le, A. Panotopoulou, E. Whiting and C.C.L. Wang. Perceptual Models of Preference in 3D Printing Direction. ACM Transactions on Graphics (Proc. SIGGRAPH Asia), 2015.

M. Deuss, D. Panozzo, E. Whiting, Y. Liu, P. Block, O. Sorkine-Hornung and M. Pauly. Assembling Self-Supporting Structures. ACM Transactions on Graphics (Proc. SIGGRAPH Asia), 2014.

M. Bächer, E. Whiting, B. Bickel and O. Sorkine-Hornung. Spin-It: Optimizing Moment of Inertia for Spinnable Objects. ACM Transactions on Graphics (Proc. SIGGRAPH), 2014.

 R. Prévost, E. Whiting, S. Lefebvre and O. Sorkine-Hornung. Make It Stand: Balancing Shapes for 3D Fabrication. ACM Transactions on Graphics (Proc. SIGGRAPH), 2013.

E. Whiting, H. Shin, R. Wang, J. Ochsendorf and F. Durand. Structural Optimization of 3D Masonry Buildings. ACM Transactions on Graphics (Proc. SIGGRAPH Asia), 2012.

E. Whiting, J. Ochsendorf and F. Durand. Procedural Modeling of Structurally-Sound Masonry Buildings. ACM Transactions on Graphics (Proc. SIGGRAPH Asia), 2009.

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Peter Winkler

The sleeping beauty controversy, American Mathematical Monthly 124 #7 (Aug-Sept 2017), 579-587.

Cop vs. gambler (with N. Komarov), Discrete Mathematics 339 #6 (June 2016), 1677-1681.

Hunter, Cauchy rabbit and optimal Kakeya sets (with Y. Babichenko, Y. Peres, R. Peretz, and P. Sousi), Transactions of the AMS 366 #10 (Oct. 2014), 5567-5586.

The phase transition for dyadic tilings (with O. Angel, A. Holroyd, G. Kozma, and J. Wastlund), Transactions of the AMS 366 #2 (Feb. 2014), 1029-1046.

Can extra updates delay mixing? (with Y. Peres), Communications in Mathematical Physics 323 (2013), 1007-1016.

Proof of the Squashed Cube Conjecture, Combinatorica 3 #1 (1983), 135-139.

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Xing-Dong Yang

Da-Yuan Huang, Ruizhen Guo, Jun Gong, Jingxian Wang, John Graham, De-Nian Yang & Xing-Dong Yang. (2017). RetroShape: Leveraging Rear-Surface Shape Displays for 2.5D Interaction on Smartwatches. Proceedings of the ACM Symposium on User Interface Software &Technology (UIST'17), 539-551.

Teng Han, Qian Han, Michelle Annett, Fraser Anderson, Da-Yuan Huang & Xing-Dong Yang. (2017). Frictio: Passive Kinesthetic Force Feedback for Smart Ring Output. Proceedings of the ACM Symposium on User Interface Software &Technology (UIST'17), 131-142 .

Jun Gong, Yang Zhang, Xia Zhou & Xing-Dong Yang. (2017). Pyro: Thumb-Tip Gesture Recognition Using Pyroelectric Infrared Sensing. Proceedings of the ACM Symposium on User Interface Software &Technology (UIST'17), 553-563.

Teddy Seyed, Xing-Dong Yang & Daniel Vogel. (2017). A Modular Smartphone for Lending. Proceedings of the ACM Symposium on User Interface Software &Technology (UIST'17), 205-215

Jun Gong, Lan Li, Daniel Vogel & Xing-Dong Yang. (2017). Cito: An Actuated Smartwatch for Extended Interactions. Proceedings of the ACM Conference on Human Factors in Computing Systems (CHI'17), 5331-5345.

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Xia Zhou

Xi Xiong, Justin Chan, Ethan Yu, Nisha Kumari, Ardalan Amiri Sani, Changxi Zheng, and Xia Zhou. Customizing Indoor Wireless Coverage via 3D-Fabricated Reflectors. ACM International Conference on Systems for Energy-Efficient Built Environments (BuildSys), 2017. 

Tianxing Li, Qiang Liu, and Xia Zhou. Ultra-Low Power Gaze Tracking for Virtual Reality. ACM Conference on Embedded Networked Sensor Systems (SenSys), 2017.   Best Paper Candidate.

Jun Gong, Yang Zhang, Xia Zhou, and Xing-Dong Yang. Pyro: Thumb-Tip Gesture Recognition Using Pyroelectric Infrared Sensing. ACM Symposium on User Interface Software and Technology (UIST), 2017.

Tianxing Li, Xi Xiong, Yifei Xie, George Hito, Xing-Dong Yang, and Xia Zhou. Reconstructing Hand Poses Using Visible Light. Proceedings of the ACM on Interactive, Mobile, Wearable and Ubiquitous Technologies (IMWUT), Volume 1 Issue 3, 2017. Presented at ACM International Joint Conference on Pervasive and Ubiquitous Computing (UbiComp), 2017.

Zhao Tian, Kevin Wright, and Xia Zhou. The DarkLight Rises: Visible Light Communication in the Dark. ACM Conference on Mobile Computing and Networking (MobiCom), 2016.    Best Video Award.

Tianxing Li, Qiang Liu, and Xia Zhou. Practical Human Sensing in the Light. ACM International Conference on Mobile Systems, Applications, and Services (MobiSys), 2016.      SIGMobile Research Highlights.

Zhao Tian, Kevin Wright, and Xia Zhou. Lighting Up the Internet of Things with DarkVLC. The Workshop on Mobile Computing Systems and Applications (HotMobile), 2016.

Tianxing Li, Chuankai An, Zhao Tian, Andrew T. Campbell, and Xia Zhou. Human Sensing Using Visible Light CommunicationACM Conference on Mobile Computing and Networking (MobiCom), September 2015.      Best Video Award.

Justin Chan, Changxi Zheng, and Xia Zhou. 3D Printing Your Wireless Coverage. ACM Workshop on Hot Topics in Wireless (HotWireless), September 2015.      Hot Paper Award.

Rui Wang, Peilin Hao, Gabriella Harari, Xia Zhou, and Andrew T. Campbell. SmartGPA: How Smartphones Can Assess and Predict Academic Performance of College Students. ACM International Joint Conference on Pervasive and Ubiquitous Computing (UbiComp), September 2015.     Honorable Mention Award.

Tianxing Li, Chuankai An, Ranveer Chandra, Andrew T. Campbell, and Xia Zhou. Low-Power Pervasive Wi-Fi Connectivity Using WiScan. ACM International Joint Conference on Pervasive and Ubiquitous Computing (UbiComp), September 2015.

Tianxing Li, Chuankai An, Xinran Xiao, Andrew T. Campbell, and Xia Zhou. Real-Time Screen-Camera Communication Behind Any Scene. ACM International Conference on Mobile Systems, Applications, and Services (MobiSys), May 2015.    Best Demo Award.

Rui Wang, Fanglin Chen, Zhenyu Chen, Tianxing Li, Gabriella Harari, Stefanie Tignor, Xia Zhou, Dror Ben-Zeev, and Andrew T. Campbell. StudentLife: Assessing Behavioral Trends, Mental Well-being and Academic Performance of College Students using Smartphones. ACM International Joint Conference on Pervasive and Ubiquitous Computing (UbiComp), September 2014.    Best Paper Nominee.

Tianxing Li, Chuankai An, Andrew T. Campbell, and Xia Zhou. HiLight: Hiding Bits in Pixel Translucency Changes. ACM Workshop on Visible Light Communication Systems (VLCS), September 2014.    Best Paper Award.

Yibo Zhu, Xia Zhou, Zengbin Zhang, Lin Zhou, Amin Vahdat, Ben Y. Zhao and Haitao Zheng. Cutting the Cord: a Robust Wireless Facilities Network for Data Centers. ACM Conference on Mobile Computing and Networking (MobiCom), September 2014.

Xia Zhou, Zengbin Zhang, Gang Wang, Xiaoxiao Yu, Ben Y. Zhao, and Haitao Zheng. Practical Conflict Graphs for Dynamic Spectrum Distribution. ACM Annual Conference of Special Interest Group on Performance Evaluation (SIGMETRICS), 2013.    Best Practical Paper Award.

Xia Zhou, Zengbin Zhang, Yibo Zhu, Yubo Li, Saipriya Kumar, Amin Vahdat, Ben Y. Zhao, and Haitao Zheng. Mirror Mirror on the Ceiling: Flexible Wireless Links for Data Centers. ACM Annual Conference of the Special Interest Group on Data Communication (SIGCOMM), 2012.

Zengbin Zhang, Xia Zhou, Weile Zhang, Yuanyang Zhang, Gang Wang, Ben Y. Zhao, and Haitao Zheng. I Am the Antenna: Accurate Outdoor AP Location using Smartphones. ACM Conference on Mobile Computing and Networking (MobiCom), 2011. 

Xia Zhou, Stratis Ioannidis, and Laurent Massoulié. On the Stability and Optimality of Universal Swarms. ACM Annual Conference of Special Interest Group on Performance Evaluation (SIGMETRICS), 2011.

 Xia Zhou, Sorabh Gandhi, Subhash Suri, and Haitao Zheng. eBay in the Sky: Strategy-Proof Wireless Spectrum Auctions. ACM Conference on Mobile Computing and Networking (MobiCom), 2008.    Best Paper Award Finalist.     
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