Publications and Presentations

U denotes undergraduate co-author
G denotes graduate student co-author.

  1. Richardson, R.U, Mackoy, T.G, Wheeler, R.A., “Long-range ordering in 1-methyl-1-alkylpyrrolidinium bis(trifluorosulfonyl)imide ionic liquids”, poster, National Conference on Undergraduate Research (NCUR) April 4-7, 2018, Oklahoma City, Oklahoma.
  2. Huang, L., Zhang, H. Wu, P., Entwistle, S.U, Li, X.G, Yohe, T.U, Yi, H., Yang, Z., Yin, Y., dbCAN-seq: a database of carbohydrate-active enzyme (CAZyme) sequence and annotation, Nucleic Acids Res. database issue, doi:10.1093/nar/gkx894, 2018.
  3. H. Schaumburg, A. al MarzoukG, and B. Erdelyi, Picard Iteration-Based Variable-Order Integrator with Dense Output Employing Algorithmic Differentiation, Numerical Algorithms, first online Febrary 19, 2018, https://doi.org/10.1007/s11075-018-0489-z.
  4. Huo, L., Zhang, H. Huo, X., Yang, Y.G, Li, X.G, Yin, Y., pHMM-tree: Phylogeny of Profile Hidden Markov Models, Bioinformatics, doi:10.1093/bioinformatics/btw779, 2017.
  5. Yang, X., ..., Fitzek, EG, ... Yin, Y., ..., Tuskan, G.A., The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism, Nature Communications, 8:1899, doi:10.1038/s41467-017-01491-7, 2017.
  6. RasheedG, I. Salehinia, Atomistic Simulation of Scratch behavior of Ceramic/Metal (CerMet) nanolaminates, MRS Advances, 2017, 2 (58-59), 3571-3576.
  7. D. BomidiG, I. Salehinia, Study of Heat Transport in Metal-Coated Carbon Nanotubes Using Molecular Dynamics Atomistic Simulations, NM2: Nanoscale Heat Transport – From Fundamentals to Devices, April 17-21, 2017, Phoenix, AZ.
  8. Salehinia, A. RasheedG, Atomistic Simulation of Scratch Behavior of Ceramic/Metal (CerMet) Nanolaminates, symposium: NM6: Mechanical Behavior of Nanostructured Composites, April 17-21, 2017, Phoenix, AZ.
  9. M. BaniukiewiczG, J. Winans, P.J. Giabbanelli, Using large-scale network analysis to capture the fastfood landscape in England, peer-reviewed abstract presented as poster at the International Conference on Network Science, Indianapolis, IN, June 19-23, 2017.
  10. E.A. LavinG, P.J. Giabbanelli, Analyzing and simplifying model uncertainty in fuzzy cognitive maps, Proceedings of the 2017 Winter Simulation Conference, Las Vegas, NV, December 3-6, 2017.
  11. Yin, Y., pHMM-tree: phylogeny of profile hidden Markov models. The Great Lakes Bioinformatics Conference 2017. University of Illinois at Chicago, May 16, 2017.
  12. Yin, Y., ORFanFinder and pHMM-tree: two bioinformatics tools for comparative genomics. Jilin University, July 6, 2017.
  13. Yin, Y., Bioinformatics and Evolutionary Genomics of Enzymes for Complex Carbohydrate Metabolism. Zhengzhou Tobacco Research Institute, China, July 11, 2017.
  14. Yin, Y., Bioinformatics and Evolutionary Genomics of Enzymes for Complex Carbohydrate Metabolism. Qingdao Institute of Bioenergy & Bioprocess Technology Chinese Academy of Sciences, July 12, 2017.
  15. Yin, Y., Bioinformatics and Evolutionary Genomics of Enzymes for Complex Carbohydrate Metabolism. Ocean University of China, July 13, 2017.
  16. Yin, Y., Develop CAZyme (Carbohydrate-active enzyme) bioinformatics annotation resource. Jilin University, December 13, 2017.
  17. Yin, Y., Develop CAZyme (Carbohydrate-active enzyme) bioinformatics annotation resource. Nankai University, December 17, 2017.
  18. Yin, Y., Orphan genes and bacterial pathogenesis. Jilin University, December 20, 2017.
  19. Richardson, R.U, Mackoy, T.G, Wheeler, R.A., “Long-range ordering in 1-methyl-1-alkylpyrrolidinium bis(trifluorosulfonyl)imide ionic liquids”, poster, Council on Undergraduate Research’s Research Experiences for Undergraduates Symposium, October 23, 2017.
  20. Tan, J., Sinno, T. and Diamond, S., Coupling molecular dynamics with lattice Boltzmann method based on the immersed boundary method, APS fluid division annual meeting, November 19-21, 2017, Denver, CO.
  21. Tan. J., Sinno, T/ and Diamond, S., A parallel fluid solid coupling model with lattice Boltzmann fluid solver and molecular dynamics simulator using the immerse boundary method. AIChE annual meeting, October 29 – November 3, 2017, Minneapolis, MN.
  22. R. Willa, A.E. Koshelev, I.A. Sadovskyy, C.L. Phillips, and A. Glatz, Strong pinning regimes by spherical inclusions in anisotropic type-II superconductors, Supercond. Sci. Technol. 31, 014001, 2017.
  23. Gregory Kimmel, Ivan A. Sadovskyy, Andreas Glatz, In silico optimization of critical currents in superconductors, Phys. Rev. E 96, 013318, 2017.
  24. Sadovskyy, I., Wayng, Y., Z.-L., W.-K., Glatz, A., Effect of hexahonal patterned arrays and defect geometry on the critical current of superconducting films, Phys. Rev. B. 95, 075303, 2017.
  25. Anderson, B.M., Clark, L.W., Crawford, J., Glatz, A., Aronson, I.S., Scherpelz, P. Feng, L., Chin, C., Levin, K., Direct Lattice Shaking of Bose Condensates: Finite Momentum Superfluids, Phy. Rev. Lett. 118, 220401, 2017.
  26. V.A. Gensini and J.T. Allen, 2017: United States hail frequency and the Global Wind Oscillation, Geophys. Res. Lett., DOE: 10.1002/2017GL076822. 2018 CRCD EXTERNAL REVIEW REPORT 20
  27. R.P. Johnson, V.A. Bashkirov, G. Coutrakon, V. GiacomettiG, P. Karbasi, N.T. Karonis, C.E. Ordoñez, H.F.-W Sadrozinski, K.E. Schubert, and R.W. Schulte, “Results from a Prototype Proton-CT Head Scanner,” Physics Procedia, October 2017, Vol 90, 2017, pp. 209-214, DOI 10.1016/j.phpro.2017.09.060.
  28. J.S. Welsh, F. DeJongh, V. Rykalin, N. Karonis, C. Ordoñez, J. Winans, G. Coutrakon, E. DeJongh, and M. Pankuch, “The Use of Established Methods to Quantify Proton Range Uncertainty Reduction When Using Proton Tomography,” International Journal of Radiation Oncology, October 2017, Vol 99, Issue 2, pp. E737, DOI 10.1016/j.ijrobp.2017.06.2375.
  29. J.S. Welsh, F. DeJongh, V. Rykalin, N. Karonis, E. DeJongh, G. Coutrakon, C. Ordoñez, J. Winans, and M. Pankuch, “Image Reconstruction with a Fast, Monolithic Proton Radiography System,” International Journal of Radiation Oncology, October 2017, Vol 99, Issue 2, pp. E737-E738, DOI 10.1016/j.ijrobp.2017.06.2376.
  30. C.E. Ordoñez, N. Karonis, K. Duffin, G. Coutrakon, R. Schulte, R. Johnson, and M. Pankuch, “A Realtime Image Reconstruction System for Particle Treatment Planning Using Proton Computed Tomography,” Physics Procedia, October 2017, Vol 90, 2017, pp. 193-199, DOI 10.1016/j.phpro.2017.09.058.
  31. Erdelyi, B., Numerical Methods for the Intensity and Precision Frontiers, Workshop on Methods in Collective and Nonlinear Effects in Bright Charged Particle Beams, talk, University of Chicago, Chicago, IL, October 28, 2017.
  32. Erdelyi, B., Electron Cooling for an Electron Ion Collider: Computational Methods and Code Development, Department of Energy, Office of Nuclear Physics, Principal Investigators Annual Meeting, Germantown, MD, October 20, 2017.
  33. Erdelyi, B., al Marzouk, A.G, An Accurate and Efficient Numerical Integrator for Pair-Wise Interaction, Chicago: NA-PAC 2016, 2016.
  34. Erdelyi, B., Gee, A.G, Implementing the Fast Multipole Boundary Element Method with High-Order Elements, Chicago: NA-PAC 2016, 2016.
  35. Erdelyi, B., Abeyratne, S.G, The First Particle-Based Proof of Principle Numerical Simulation of Electron Cooling, Chicago: NA-PAC 2016, 2016.
  36. Erdelyi, B., Gee, A.G, A Differential Algebraic Framework for the Fast Indirect Boundary Element Method, Busan: IPAC 2016, 3107-3109, 2016.
  37. Erdelyi, B., Mustapha, B., Ostroumov, P., A More Compact Design for the JLEIC Ion Pre-Booster Ring. Chicago: NA-PAC 2016, 2016.
  38. B. WinklerG, I. S. Aranson and F. Ziebert, Membrane tension feedback on shape and motility of eukaryotic cells, Physica D, 318-319, 26, 2016.
  39. Travis MackoyG, Temperature-Dependent Structural Ordering and Dynamics of C4C1pyrrTFSI, talk, NIU Ionic Liquid Workshop, December 2016.
  40. Jayne, R.S.G, Pollyea, R.M., Dodd, J.P., Olson, E.J.G, and Swanson, S.K., Spatial and temporal constraints on regional-scale groundwater flow in the Pampa del Tamarugal Basin, Atacama Desert, Chile. Hydrogeology Journal, Vol. 24, No. 8, p. 1921–1937, doi:10.1007/s10040-016-1454-3, December 2016.
  41. C.E. Ordoñez, N. Karonis, K. Duffin, G. Coutrakon, R. Schulte, R. Johnson, and M. Pankuch, “A Real-Time Image Reconstruction System for Particle Treatment Planning Using Protons Computed Tomography (pCT),” 24th International Conference on the Applications of Accelerators in Research and Industry, Fort Worth, TX, October 30, 2016 – November 4, 2016.
  42. Yin Y, Bioinformatics tool development for genomics research, talk, Northern Illinois University, Statistics Division, September 15, 2016.
  43. A. LueangaramwongG, P. Piot, Structured electron beams from nano-engineered cathodes, Proceedings of the 17th Advanced Accelerator Concept Workshop (AAC16), National Arbor, MD, USA, in press, July 31st – August 5th, 2016, 2016.
  44. Yin Y, ORFanFinder: automated identification of taxonomically restricted orphan genes, talk, The GLBIO/CCBC Great Lakes Bioinformatics and the Canadian Computational Biology Conference 2016. University of Toronto, Canada, May 18, 2016.
  45. Yin Y, Bioinformatics Study of Plant Cell Walls and Microbial Pathogens, talk, Department of Mathematical Sciences, Northern Illinois University, March 25, 2016.
  46. Ekstrom AU, Yin Y, ORFanFinder: automated identification of taxonomically restricted orphan genes, Bioinformatics, Jul 1;32(13):2053-5. doi:10.1093/bioinformatics/btw122, 2016.
  47. Hu L, Taujale RG, Song J, Guo J, Yin Y, Draft genome sequence of Talaromyces verruculosus (“Penicillium verruculosum“) strain TS63-9, a fungus with great potential for industrial production of polysaccharide-degrading enzymes, Journal of Biotechnology, 219:5-6. doi: 10.1016/j.jbiotec.2015.12.017. PMID: 26707807, 2016.
  48. A SeymourG, D Grote, D Mihalcea, P Piot, JL Vay, Beam dynamics simulations of optically-enhanced field emission from structured cathodes, AIP Conference Proceedings 1777, 080014, 2016.
  49. F LemeryG, P Piot, Passive longitudinal-phase-space tailoring of non-ultra-relativistic beams with dielectric-lined waveguides, AIP Conference Proceedings 1777, 080008, 2016.
  50. A. LueangaramwongG, D. Mihalcea, G. Andonian, P. Piot, Numerical Simulations of Early-Stage Dynamics of Electron Bunches Emitted from Plasmonic Photocathodes, arXiv:1612.02956 [physics.acc-ph]; Nucl. Instrum. Meth A, 2016.
  51. H. HalavanauG, P. Piot, Simulation of a cascaded longitudinal space charge amplifier for coherent radiation generation, Nucl. Instrum. Meth A 819, 144, 2016.
  52. Preeti VodnalaG, Nuwan KarunaratneG, Sambhunath Bera, Laurence Lurio, George M. Thurston, Nick Karonis, John Winans, Alec Sandy, Suresh Narayanan, Linda Yasui, Elizabeth Gaillard, and Kalyan Karumanchi, Radiation damage limits to XPCS studies of protein dynamics, AIP Conference Proceedings 1741, 050026, doi: http://dx.doi.org/10.1063/1.4952946, 2016.
  53. Anderson, B. M., Clark, L. W., Crawford, J., Glatz, A., Aronson, I. S., Scherpelz, P., Feng, L., Chin, C., Levin, K., Floquet-Band Engineering of Shaken Bosonic Condensates arXiv:1612.06908, 2016.
  54. Jared Sagoff, Scientists optimize defects for better superconducting effects, Argonne Press Release, July 12, 2016.
  55. Klaus Neumann, U.S. researchers propose new method for enhancing Ic in HTS, Superconductor Week, 30, No. 5, June 7, 2016.
  56. Yuri Eroshenko, Design of superconductors with given properties, Physics-Uspekhi, 59, No. 6, June 1, 2016.
  57. Rob Mitchum, Better superconductors by design, University of Chicago and Argonne National Laboratory, both April 4, 2016.
  58. Rob Mitchum, Simulating a better superconductor design, Science Node, April 13, 2016.
  59. S. I. TissaG, V. Vishwanath, J. Winans, R. Kettimuthu, M. E. Papka, Improving Parallel File Transfers, Greater Chicago Area Systems Research Workshop (GCASR), Poster, April 2016.
  60. Ivan A. Sadovskyy, Ying Jia, Maxime Leroux, Jihwan Kwon, Hefei Hu, Lei Fang, Carlos Chaparro, Shaofei Zhu, Ulrich Welp, Jianmin Zuo, Venkat Selvamanickam, George W. Crabtree, Alexei E. Koshelev, Andreas Glatz, and Wai-Kwong Kwok, Towards Superconducting Critical Current by Design, Advanced Materials 28, 4593, 2016.
  61. F. LemeryG and P. Piot, Tailored electron bunches with smooth current profiles for enhanced transformer ratios in beam-driven acceleration, Phys. Rev. ST Accel. Beams 18, 081301, 2015.
  62. Jayne, R.S.G, and Pollyea, R.M., Dodd, J.P., Olson, E.J.G, and Swanson, S.K. 2015. Assessing groundwater recharge mechanisms in the Pampa del Tamarugal Basin of northern Chile. American Geophysical Union Fall Meeting, San Francisco, California, December, 14–18 2015.
  63. J. LöberG, F. Ziebert and I. S. Aranson, Collisions of deformable cells lead to collective migration, Sci. Rep. 5, 9172, 2015.
  64. Pollyea, R.M., Van Dusen, E.W.G, and Fischer, M.P., Topographically driven fluid flow within orogenic wedges: Effects of taper angle and depth-dependent permeability. Geosphere, Vol. 11, No. 5, p. 1427–1437, October. doi:10.1130/GES01120.1, October 2015.
  65. R. ChardG, R. Madduri, N. Karonis, K. Chard, K.L. Duffin, C.E. Ordoñez, T.D. Uram, J. FleischauerG, I.T. Foster, M.E. Papka, and J. Winans, “Scalable pCT Image Reconstruction Delivered as a Cloud Service,” IEEE Transactions on Cloud Computing, Issue 99, DOI 10.1109/TCC.2015.2457423, July 16, 2015.
  66. Yin Y, Plant Cell Wall Evolution: Genomics and Bioinformatics Approaches, talk, Peking University, Center for Bioinformatics, College of Life Sciences, China, June 24, 2015.
  67. Yin Y, Bioinformatics tools to identify orphan genes and horizontally transferred genes in pathogenic microbes, talk, Jilin University, School of Computer Science, China, June 18, 2015.
  68. Yin Y, Bioinformatics tools to identify orphan genes and horizontally transferred genes in pathogenic microbes, talk, Jilin University, School of Basic Medicine, China, June 17, 2015.
  69. Yin Y, Plant biomass formation and degradation: bioinformatics and genomics approaches, talk, Nankai University, School of Informatics, China, June 15, 2015.
  70. Yin Y, Bioinformatics tools to identify orphan genes and horizontally transferred genes in pathogenic microbes, talk, Yangzhou University, College of Life Sciences, China, June 12, 2015.
  71. Yin Y, Plant biomass formation and degradation: bioinformatics and genomics approaches, talk, Shandong University, College of Life Sciences, China, June 4, 2015.
  72. Yin Y, ORFanFinder server: towards automated identification and classification of orphan genes, poster, Great Lakes Bioinformatics Conference, Purdue University, IN, May 18-20, 2015.
  73. Yin Y, Plant Cell Wall Evolution: Genomics and Bioinformatics Approaches, talk, Southern Illinois University, Plant Science Department, May 7, 2015.
  74. Anthony GeeG and B. Erdelyi, Smooth Fast Multipole Method for Space Charge Tracking: An Alternate to Particle-in-Cell, Proceedings of 6th IPAC, Richmond, VA, May 3-8, p. MOPMA050, 1-3, 2015.
  75. F. Lin, B. Erdelyi, et al., Progress on the Design of the Polarized Medium-energy Electron Ion Collider at JLab, Proceedings of 6th IPAC, Richmond, VA, May 3-8, p. TUYB3, 1-6, 2015.
  76. S. AbeyratneG, B. Erdelyi, et al., MEIC Design Summary, arXiv: 1504.07961[physics.acc-ph], Apr. 29 (2015) 1-65, 2015.
  77. E. Nissen, B. Erdelyi and S. Manikonda, A Differential Algebraic Method for the Solution of the Poisson Equation for Charged Particle Beams, Comm. Comp. Phys., 17(1), 47-78, 2015.
  78. Erdelyi, B., Lindemann, M., Berz, M., Differential Algebra Based Magnetic Field Computations and Accurate Fringe Field Maps, Vestnik Mathematica, 10(4) 36-55, 2015.
  79. Yin Y, Bioinformatics tools to identify orphan genes and horizontally transferred genes in pathogenic microbes, talk, University of Illinois at Chicago, College of Pharmacy at Rockford, April 27, 2015.
  80. T.D. Uram, M.E. Papka, and N.T. Karonis, “Accelerating Proton Computed Tomography with GPUs,” NVIDIA GPU Technology Conference 2015, San Jose, CA, March 19, 2015.
  81. Yin Y, Plant Cell Wall Evolution: Genomics and Bioinformatics Approaches, talk, University of Nebraska, Center for Biotechnology and School of Biological Sciences, March 12, 2015.
  82. Nguyen MU, Ekstrom AU, Li XG and Yin Y, HGT-Finder: a new tool for horizontal gene transfer finding and application to Aspergillus genomes, Toxins, 7(10):4035-4053, 2015.
  83. J. LöberG, F. Ziebert, I. S. Aranson, Collisions of deformable cells lead to collective migration, Sci. Rep. 5, 9172, 2015.
  84. Cao HG, Ekstrom AU, Yin Y, Plant carbohydrate active enzyme (CAZyme) repertoires: a comparative study, Book chapter in Advances in the Understanding of Biological Sciences using Next Generation Sequencing (NGS) Approaches, Springer publishing, 10.1007/978-3-319-17157-9_8, p115-134, 2015.
  85. Peter Scherpelz, Karmela Padavić, Andy Murray, Andreas Glatz, Igor S. Aranson, K. Levin, Perturbation-induced defects in trapped superfluids exhibit generic behavior, Phys. Rev. A 91, 033621, 2015.
  86. D’AlessandroU, JohnU, Potential effects on pollution from Central American brush fires on precipitation inhibition and/or drought conditions in Texas, poster, Advisor: Jie Song, NIU Undergraduate Research and Artistry Day, 2015.
  87. Pollyea, R.M., Van Dusen, E.W.G, and Fischer, M.P, Groundwater flow within a sub-aerial orogenic wedge subject to depth-dependent permeability structure, Abstract H31P-03. American Geophysical Union Fall Meeting, San Francisco, California, December 15–19, 2014.
  88. Dodd, J.P. and Pollyea, R.M., Combining numerical modeling and stable isotopes to quantify groundwater circulation from the Chilean Andes to the Pampa del Tamarugal Basin, Atacama Desert, northern Chile. American Geophysical Union Fall Meeting, San Francisco, California. December 15–19, 2014.
  89. Pollyea, R.M. and Benson, S.M., A probabilistic assessment of the geomechanical response to CO2 injections in large igneous provinces. DE-FOA0001037 Kick-Off Meeting, National Energy Technology Laboratory, Pittsburgh, Pennsylvania, November 13, 2014.
  90. Maloney, J., Morozov, V., Derbenev, Y., Afanasev, A., Johnson, R., Ankenbrandt, C., Yoshikawa, C., Yonehara, K., Neuffer, D., Erdelyi, B., Numerical Studies of Optimization and Aberration Correction Methods for the Preliminary Demonstration of the Parametric Ionization Cooling (PIC) Principle in the Twin-Helix Muon Cooling Channel, e-print arXiv:1401.8256, 2014.
  91. A. GeeG and B. Erdelyi, Space Charge Map Extraction and Analysis in a Differential Algebraic Framework, Proceedings of HB2014, East Lansing, MI November 11-14, 2014.
  92. S. AbeyratneG, H. SchaumburgG and B. Erdelyi, A Novel Code with High-Order Adaptive Dynamics to Solve the N-Body Problem, Proceedings of HB2014, East Lansing, MI November 11-14, 2014.
  93. Pollyea, R.M., Physical constraints on CO2 sequestration in low-volume basalt reservoirs. Illinois Groundwater Association Annual Meeting, Elgin, Illinois, October 28, 2014.
  94. Yin Y, PlantCAZyme: a database for plant carbohydrate-active enzymes (poster), Plants and BioEnergy 2014 Congress, Conference Center of University of Guelph, Canada June 4 -7, 2014.
  95. Pollyea, R.M., Fairley, J.P., Podgorney, R.K. and McLing, T.L., Physical constraints on geologic CO2 sequestration in low volume basalt formations. Geological Society of America Bulletin, Vol. 126, No. 3/4, p. 344–351, March/April. doi:10.1130/B30874.1, March/April 2014.
  96. S. AbeyratneG and B. Erdelyi, A New High-Order Adaptive Dynamics Code with Applications to Electron Cooling, Proceedings of EIC2014, Newport News, VA, March 17-21, 2014.
  97. G. Coutrakon, G. Blazey, S. BoiU, A. Dyshkant, B. Erdelyi, D. Hedin, E. Johnson, J. Krider, S.A. Uzunyan, V. Zutshi, R. Ford, G. Sellberg, J.E. Raunch, M. Roman, P. Rubinov, P. Wilson, K. Lalwani, M. Naimuddin, A New Proton CT Scanner, Physics Procedia, 00 1-6, 2014.
  98. Rand, KristopherU and Lim, BrigetteU, Modeling the Influence of Urban Land Use on Regional Climate, poster, Adviosr: Jie Song, NIU Undergraduate Research and Artistry Day, 2014.
  99. S. Aranson, J. Löber, F. Ziebert, Phase-field description of substrate-based motility of eukaryotic cells, Engineering of Chemical Complexity II (pp. 93-104), World Scientific, A. S. Mikhailov, G. Ertl (Eds.), 2014.
  100. Peter Scherpelz, Karmela Padavić, Adam Rançon, Andreas Glatz, Igor S. Aranson, and K. Levin, Phase Imprinting in Equilibrating Fermi Gases: The Transience of Vortex Rings and Other Defects, Phys. Rev. Lett. 113, 2014.
  101. Ekstrom AU, Taujale RG, McGinn NU, Yin Y, PlantCAZyme: a database for plant carbohydrate-active enzymes, Database (Oxford), DOI: 10.1093/database/bau079. PubMed PMID: 25125445, 2014.
  102. F LemeryG, P Piot, Ballistic bunching of photoinjected electron bunches with dielectric-lined waveguides, Phys. Rev. ST Accel. Beams 17, 112804, 2014.
  103. Shillaber, A.S.G and Pollyea, R.M. 2013. Using soil CO2 gradients to identify CCS reservoir leakage: Geological Society of America Abstracts with Programs, v. 45, no. 7, p. 99. (poster presentation at national conference).
  104. Van Dusen, E.G, Pollyea, R.M., and Fischer, M.P. 2013. Understanding the influence of taper angle on fluid system evolution in a critically tapering orogenic wedge: Geological Society of America Abstracts with Programs, v. 45, no. 7, p. 275. (oral presentation at national conference).
  105. N.T. Karonis, K.L. Duffin, C.E. Ordoñez, B. Erdelyi, T.D. Uram, E.C. Olson, G. Coutrakon, M.E. Papka, “Distributed and Hardware Accelerated Computing for Clinical Medical Imaging using Proton Computed Tomography (pCT),” Journal of Parallel and Distributed Computing, December 2013, Volume 73, Issue 12, pp. 1605-1612.
  106. Todd, K.A.G (2013, September). “Using X-ray microtomographic imaging to conduct fluid flow simulations on porous media.” Poster session presented at the AAPG-SEG Student Expo, Houston, TX. Won second place for student poster competition.
  107. S. AbeyratneG and B. Erdelyi, “Optimization of the Multipole to Local Translation Operator in the Adaptive Fast Multipole Method”, Proceedings of NAPAC2013, Pasadena, September 29-October 04, 2013.
  108. A. GeeG and B. Erdelyi, “Study and Comparison of the Method of Moments and the Single Level Fast Multipole Method for 2D Space Charge Tracking”, Proceedings of NAPAC2013, Pasadena, September 29-October 04, 2013.
  109. A. al-MarzoukG and B. Erdelyi, “Numerical Integrator for Coulomb Collisions”, Proceedings of NAPAC2013, Pasadena, September 29-October 04, 2013.
  110. H. SchaumburgG, B. Erdelyi, “A Picard Iteration-Based Integrator”, Proceedings of NAPAC2013, Pasadena, September 29-October 04, 2013.
  111. S. AbeyratneG and B. Erdelyi, “A Novel Differential Algebraic Adaptive Fast Multipole Method”, in Proc. 4th IPAC'13, Shanghai, 2013.
  112. S. AbeyratneG, B. Erdelyi, S.L. ManikondaG, Optimal Fast Multipole Method Data Structures, Conf.Proc. C1205201 (2012) 352-354.
  113. J. Zhou, A. BrunsonG, J. Winans, K. Duffin, and N. Karonis, “High Performance Model Selection for Learning-based Biological Image Analysis on a Cluster”, ACM Conference on Bioinformatics, Computational Biology and Biomedicine (ACM BCB 2013), Washington D.C., September 2013, pp. 324-332.
  114. Yin, Y, “Diversity and evolution of cellulosome modules in metagenomes,” conference talk, the 3rd International Conference on Proteomics & Bioinformatics (Proteomics-2013), DoubleTree by Hilton Philadelphia Center City, USA, July 15-17, 2013.
  115. F. LemeryG, P. Mullowney, P. StolzG, K. Duffin, N. Karonis, D. MihalceaG, P. Piot, and J. Winans, “Performances of Vorpal-GPU Slab-symmetric DLW,” The 4th International Particle Accelerator Conference (IPAC13), May 12-17, 2013, Shanghai, China, pp. 1298-1300.
  116. P. Piot, F. LemeryG, D. MihalceaG, C. ProkopG, D. StoltzG, Y.-E Sun, “Toward a Dielectric-Wakefield Energy Doubler at the Fermilab's Advanced Superconducting Test Accelerator,” Proceedings of the 2013 International Accelerator Conference (IPAC13), Shanghai, May 12-17, 2013, p. 1295-1297 (2013).
  117. F. LemeryG, H. PanugantiG, D. MihalceaG, P. Piot, P. StoltzG, “THz Bench Tests of Slab-symmetric Dielectric Waveguide,” Proceedings of the 2013 International Accelerator Conference (IPAC13), Shanghai, May 12-17, 2013, p. 1292-1294 (2013).
  118. McGinn NU, “PlantCAZyme: a database for plant carbohydrate active enzymes,” student poster presentation, BIOS annual Phi Sigma Research Symposium and NIU Undergrad. Research & Artistry Day, April 2013.
  119. C. DeCaroG, V.N. KarunaratneG, S. Bera, L.B. Lurio, A.R. Sandy, S. Narayanan, M. Sutton, J. Winans, K. Duffin, J. LehutaU, and N. Karonis, “X-ray Speckle Visibility Spectroscopy in the Single photon Limit,” Journal of Synchrotron Radiation, March 2013, 20 (2), pp. 332-338, DOI: 10.1107/S0909049512051825.
  120. B. Erdelyi, The fast multipole method for N-body problems, AIP Conf. Proc. 1507, 387-392 (2012), DOI:10.1063/1.4773727.
  121. Todd, K.A.G, Watson, H.C., Yu, T., Wang, Y. (2012, December). “The effects of shear deformation on planetesimal core segregation: Results from in-situ X-ray microtomography”. Poster session presented at the American Geophysical Union Fall Meeting, San Francisco, CA.
  122. K. Duffin, N.T. Karonis, C.E. Ordoñez, M.E. Papka, G. Coutrakon, B. Erdelyi, E.C. Olson, and T.D. Uram, “An Analysis of a Distributed GPU Implementation of Proton Computed Tomographic (pCT) Reconstruction,” The 7th Workshop on Ultrascale Visualization, November 12, 2012, Salt Lake City, UT.
  123. B. Erdelyi, Presentation, “N-body building: the Fast Multipole Method and Differential Algebraic Integrators,” NIU Mathematics Department, October 26,12 (seminar).
  124. Todd, K.A.G, Watson, H.C., Yu, T., Wang, Y. (2012, June). “The effects of shear deformation on planetesimal core segregation: Results from in-situ X-ray microtomography”. Poster session presented at the V.M. Goldschmidt Annual Conference, Montréal, QC.
  125. B. Erdelyi, Presentation, The fast multipole method for N-body problems, AAC’12, Austin, TX, June 2012 (workshop by invitation only; contributed talk).
  126. G. Coutrakon, K. Duffin, N. Karonis, E. Olson, C. Ordoñez, M.E. Papka, and T. Uram, “High-Performance Multiple-CPU/GPU Proton Computed Tomography,” Trans. ANS, 106, pp. 70-72, June 2012.

Contact Us

General User Questions

General user questions or reports of problems should be sent to support@hpc.niu.edu.

New Accounts, Projects, or Exploratory Discussion

Requests for new accounts or projects, or to engage the CRCD staff in potential collaborative work including scheduling an exploratory meeting to discuss how the CRCD resources might be used in your work, please send an email to Nick Karonis, karonis@niu.edu.