Cameron F. Abrams

 

Journal Publications (Peer-Reviewed)

 

            2009

 

39. Debashish Mukherji and Cameron F. Abrams, “Mechanical behavior of highly cross-linked polymer networks and its direct links to microscopic structure,” Phys. Rev. E 79:061802 (2009).

38. Debashish Mukherji and Cameron F. Abrams, “Anomolous ductility in thermoset/thermoplastic polymer alloys,” Phys. Chem. Chem. Phys. 11:2113-2115 (2009).

 

           

2008

 

37. Debashish Mukherji and Cameron F. Abrams, “Microvoid formation and strain hardening in highly cross linked polymer networks,” Phys. Rev. E  78:050801(R) (2008).

36. Harish Vashisth and Cameron F. Abrams, “Ligand escape pathways and (un)binding free energy calculations for the hexameric insulin-phenol complex,” Biophys. J. 95:4193-4204 (2008).

 

2007

 

35. Yelena Sliozberg and Cameron F. Abrams, “Spontaneous conformational changes in the E. coli GroEL subunit from all-atom molecular dynamics simulations,” Biophys. J. 93:1906-1916 (2007).

34. Ehsan Jabbarzadeh and Cameron F. Abrams, “Strategies to enhance capillary formation inside biomaterials:  A computational study,” Tissue Eng. 13:2073-2086 (2007) (Cover).

33. David Richardson and Cameron F. Abrams, “The effects of nanotube fillers on craze formation in simulated glassy polymers under tensile load,” Mol. Sim. 33:421-427 (2007).

32. Ehsan Jabbarzadeh and Cameron F. Abrams, “Simulations of chemotaxis and random motility in 2D random porous domains,” Bull. Math. Biol. 69:747-764 (2007).

 

 

            2006

 

31. Cameron F. Abrams, Nam-Kyung Lee, and Albert Johner, “Diffusion/reaction in confined polymer chains,” Macromolecules 39:3655-3663 (2006).

30. David Richardson and Cameron F. Abrams, “Polymer chain winding in the melt,” Macromolecules 39(6); 2330-2339 (2006).

 

 

2005

 

29. Nam-Kyung Lee, Cameron F. Abrams, and Albert Johner, “Optimal confinement for internal polymer binding,” Europhys. Lett. 72(6):922-928 (2005).

28. Cameron F. Abrams, “Concurrent dual-resolution Monte Carlo simulation of liquid methane,” J. Chem. Phys. 123:234101 (2005).

27. Yelena Sliozberg and Cameron F. Abrams, “The effects of confinement on the thermodynamics of a collapsing heteropolymer: An off-lattice Wang-Landau Monte Carlo simulation study,” Macromolecules 38:5321-5329 (2005).

26. Ehsan Jabbarzadeh and Cameron F. Abrams, “Fundamental limits on the efficacy of intercellular communication by diffusion,” J. Phys. Soc. Japan 74(4):1139-1141  (2005).

25. Ehsan Jabbarzadeh and Cameron F. Abrams, “Chemotaxis and random motility in unsteady chemoattractant fields: A computational study,” J. Theor. Biol. 235:221-232 (2005).

24. Yelena Sliozberg and Cameron F. Abrams, “Structural correlations in comb heteropolymers in good and backbone-selective solvents,” J. Polym. Sci. B. Polym. Phys. 43:983-993 (2005).

 

      2004

 

23. Nam-Kyung Lee and Cameron F. Abrams, “Kinetics of a polysoap collapse,” J. Chem. Phys. 121:7484-7493 (2004).

22. Yelena Sliozberg and Cameron F. Abrams, “Polysoaps in backbone-selective solvents: Effects of side-chain length on collapse dynamics,” Soft Materials 2:11-25 (2004).

21. Nam-Kyung Lee, Cameron F. Abrams, Albert Johner, and Sergei Obukhov, “Swelling dynamics of collapsed polymers,” Macromolecules 37:651-661 (2004).

 

2003

 

20. Nam-Kyung Lee, Cameron F. Abrams, Albert Johner, and Sergei Obukhov, “Arrested swelling of highly entangled polymer globules,” Phys. Rev. Lett. 90(22):225504 (2003).

19. Luigi Delle Site, Ali Alavi, and Cameron F. Abrams, “Adsorption energies and geometries of phenol on the (111) surface of nickel: An ab initio study,” Phys. Rev. B 67(19):193406 (2003).

18. Cameron F. Abrams, Luigi Delle Site, and Kurt Kremer, “Dual-resolution coarse-grained/atomistic simulation of the bisphenol-A-polycarbonate/nickel interface,” Phys. Rev. E 67:021807 (2003).

17. Cameron F. Abrams and Kurt Kremer, “Combined coarse-grained and atomistic simulation of liquid bisphenol-A-polycarbonate:  Liquid packing and intramolecular structure,” Macromolecules 36:260-267 (2003).

 

2002

 

16. Luigi Delle Site, Cameron F. Abrams, Ali Alavi, and Kurt Kremer. “Polymers near metal surfaces:  Selective adsorption and global conformations,” Phys. Rev. Lett., 89(15):156103 (2002).

15. Cameron F. Abrams, Namkyung Lee, and Sergei Obukhov.  “Collapse dynamics of a homopolymer:  Theory and simulation,” Europhys. Lett., 59(3): 391-397 (2002).

14. Cameron F. Abrams and Kurt Kremer.  “Effects of excluded volume and bond length on the dynamics of dense bead-spring polymer melts,” J. Chem. Phys., 116(7):3162-3165 (2002).

2001

13. Cameron F. Abrams and Kurt Kremer.  “The effect of bond length on the structure of dense bead-spring polymer melts,” J. Chem. Phys., 115(6):2776-2785 (2001).

12. Cameron F. Abrams and David B. Graves.  “Atomistic simulation of fluorocarbon deposition on Si by continuous bombardment with energetic CF+ and CF2+,” J. Vac. Sci. Technol. A, 19(1):175-181 (2001).

2000

11. Cameron F. Abrams and David B. Graves. “Atomistic simulation of Si etching by energetic CF3+: Product distributions and energies,” Thin Solid Films, 374(2):150-156 (2000).

10. Cameron F. Abrams and David B. Graves. “Molecular dynamics simulations of Si etching with energetic F+:  Sensitivity of results to the interatomic potential,” J. Appl. Phys., 88(6):3734-3738 (2000).

9.   Junichi Tanaka, Cameron F. Abrams and David B. Graves. “A new C-F interatomic potential for molecular dynamic simulation of fluorocarbon film formation,” J. Vac. Sci. Technol. A, 18(3):938-945 (2000).

8.   Cameron F. Abrams and David B. Graves. “On the active surface layer in CF3+ etching of Si: Atomistic simulation and a simple mass balance model,” J. Vac. Sci. Technol. A, 18(2):411-416 (2000).

1999

7.   Cameron F. Abrams and David B. Graves. “Molecular dynamics simulations of Si etching by energetic CF3+ ions,” J. Appl. Phys., 86(11):5938-5948 (1999).

6.   Cameron F. Abrams and David B. Graves.  “Three-dimensional spatiokinetic distributions of sputtered and scattered products of Ar+ and Cu+ impacts  onto the Cu surface:  Molecular dynamics simulations,” IEEE Trans. Plas. Sci., 27(5):1426-1432 (1999).

5.   Michael A. Vyvoda, Cameron F. Abrams and David B. Graves.  “Profile evolution simulation of copper seed layer deposition:  Using atomic level particle scattering information,” IEEE Trans. Plas.  Sci., 27(5):1433-1440, 1999.

4.   Cameron F. Abrams and David B. Graves.  “Cu+ bombardment of Cu surfaces at near-threshold energies: Molecular dynamics simulations,” J. Appl. Phys., 86(4):2263-2267 (1999).

Prior to 1999

3.   Cameron F. Abrams and David B. Graves.  “Energetic ion bombardment of SiO2 surfaces:  Molecular dynamics simulations,” J. Vac. Sci. Technol. A, 16(5):3006-3019 (1998).

2.   W. S. Ahn, Yaping Zhong, Cameron F. Abrams, P. K. Lim, and P. A. Brown.  “Biphasic autoxidation of tetralin catalyzed by surface-active transition metal complexes,” J. Phys. Chem. B, 101(4):596-602 (1997).

1.   Yaping Zhong, Cameron F. Abrams, and P. K. Lim.  “Biphasic synthesis of poly(2,6-dimethyl-1,4-phenylene oxide) using a surface-active coupling catalyst.  2.  Process improvements, additional kinetic results, and proposed reaction mechanism,” Ind. Eng. Chem. Res., 34:1529-1535 (1995).

Lecture Notes and Conference Proceedings

 

4. Ehsan Jabbarzadeh and Cameron F. Abrams, “Simulations of Chemotaxis and Random Motility in Finite Domains,” in Nanoscale Materials Science in Biology and Medicine, C. T. Laurencin and E. Botchwey, eds., Materials Research Society Symposium Proceedings, 845:37-48 (2005).

3. Cameron F. Abrams, “Inhomogeneous Coarse-Graining of Polymers and Polymer/Metal Interfaces,” in “Computational Soft Matter:  From Synthetic Polymers to Proteins,” N. Attig, K. Binder, H. Grubmüller, and K. Kremer, eds., Lecture Notes of the John von Neumann Institute for Computing (NIC) 23:275-288 NIC-Directors (2004).

2. Cameron F. Abrams, “Dual Resolution Molecular Simulation of Bisphenol-A Polycarbonate Adsorption onto Nickel (111):  Chain Length Effects,” in “Multiscale Modeling and Simulation,” S. Attinger and P. Koumoutsakos, eds., Lecture Notes in Computational Science and Engineering 39:131-142 Springer (2004).

1. Cameron F. Abrams, Luigi Delle Site, and Kurt Kremer, “Multiscale Computer Simulations for Polymeric Materials in Bulk and near Surfaces,” in “Bridging Time Scales: Molecular Simulations for the Next Decade,” P. Nielaba, M. Mareschal, and G. Ciccotti, eds., Lecture Notes in Physics 605:143 Springer (2002).

 

Book Chapter

 

1. Cameron F. Abrams, “Molecule-Based Coarse-Graining for Polymer Simulation,” Handbook of Theoretical and Computational Nanotechnology, vol. 4, pp 463-517, Michael Rieth and Wolfram Schommers, Eds. (2006).

 

Colloquia and Invited Talks

 

19. “Molecular Simulation Studies of Insulin and its Receptor,” Department of Physics, Drexel University, 11 November 2008.

18. “Molecular Simulation Studies of Insulin and its Receptor,” Department of Biochemistry and Molecular Biology, Drexel University College of Medicine, 28 January 2008.

17. “Molecular Simulation Studies of Chaperonin,” Department of Chemical and Biomolecular Engineering, Ohio State University, 4 October 2007.

16. “Computer Simulation Studies of Chaperonin,” Department of Chemical and Environmental Engineering, the University of Arizona, 28 August 2007.

15. “Some Recent Developments in Monte Carlo Simulations of Soft Condensed Matter,” Department of Applied Mathematics, the University of Western Ontario, 25 October 2006.

14. “Systematic Coarse-Graining and Concurrent Multiresolution Simulation of Molecular Liquids,” ORNL/CNRS NanoFocUL, 28-30 August 2006.

13. “Entanglement Effects in the Plastic Deformation of Glassy Polymers and Nanocomposites,” US-Poland Workshop on Nanoscience and Nanostructured Materials, Poznan, Poland, 26-29 June 2006.

12 a,b,c. “Simulation Studies of Chemotaxis and Random Motility,” Lehigh University Department of Chemical Engineering, 16 November 2005; University of New Mexico Department of Chemical and Nuclear Engineering, 6 December 2005; and CCNY Chemical Engineering Department, 30 January 2006.

11. “Systematic Coarse-Graining and Concurrent Multiresolution Simulation of Molecular Liquids,” University of Minnesota Institute for Mathematics and its Applications (IMA) workshop: Effective Theories of Materials and Macromolecules, Minneapolis, 7-11 June 2005.

10. “Simulations of Chemotaxis and Random Motility in Finite Domains,” Materials Research Society Fall Meeting, Boston, 29 November 2004.

9.   “Resolution Focusing in Simulations of Molecular Liquids,” American Chemical Society National Meeting, Philadelphia, 22 August 2004.

8.   “Resolution Focusing in Simulations of Molecular Liquids,” NYU Courant Institute Applied Mathematics Seminar, 12 March 2004.

7.   “Inhomogeneous Coarse-Graining of Polymers and Polymer/Metal Interfaces,” FZ Jülich Workshop on Computational Soft Matter, Bonn, Germany, 9 March 2004.

6.   “Multiresolution Simulation of Polymers,” ETHZ Summer School on Multiscale Modeling and Simulation, Lugano, Switzerland, August, 2003.

5.   “Atomistic Simulation of Energetic Fluorocarbon Ion Bombardment of Silicon,” Department of Chemistry, University of Antwerp, Antwerp, Belgium, 7 December 2001.

4.   “Comparison of Coarse-Graining Schemes for Structural Investigation of Polycarbonate Liquids via Simulation,” Division of Engineering and Applied Science, California Institute of Technology, 9 November 2001.

3.   “Theory and Simulation of the Fractal Stages of Homopolymer Collapse,” Department of Physics, University of Florida, 13 Nov 2001.

2.   “Molecular Dynamics Simulations of Reactive Ion Bombardment of Silicon Surfaces,” Department of Physics, University of Kaiserslautern, Kaiserslautern, Germany, 10 January 2000.

1.   “Molecular Dynamics Simulations of Reactive Ion Bombardment of Silicon Surfaces,” Ph.D. Colloquium, Department of Chemical Engineering, University of California, Berkeley, 25 August 1999.

 

 

Contributed Conference Presentations

 

35. Harish Vashisth and Cameron F. Abrams, “Thermodynamics of Multiple Phenol Dissociation Pathways In the R6 Insulin Hexamer,” Annual Meeting of the American Institute of Chemical Engineers, Philadelphia, PA, 18 November 2008.

34. Harish Vashisth and Cameron F. Abrams, “Ligand escape pathways and free energy calculations from nonequilibrium simulations: A computational study of the insulin-phenol complex,” Biophysical Society Annual Meeting, Long Beach, CA, March 2008.

33. Cameron F. Abrams, “Molecular dynamics simulations of the GroEL heptamer,” Annual Meeting of the American Institute of Chemical Engineers, Salt Lake City, UT, 6 November 2007.

32. Harish Vashisth and Cameron F. Abrams, “Escape pathways of phenolic ligands from the insulin-phenol complex,” Annual Meeting of the American Institute of Chemical Engineers, Salt Lake City, UT, 6 November 2007. (Co-winner, CoMSEF Graduate Student Poster Competition)

31. Yelena Sliozberg and Cameron F. Abrams, “Spontaneous conformational transitions in unbiased all-atom molecular dynamics simulations of the GroEL subunit,” Biophysical Society Annual Meeting, Baltimore, MD, 6 March 2007.

30. Yelena Sliozberg and Cameron F. Abrams, “Nucleotide-dependent allostery in the GroEL subunit,” Annual Meeting of the American Institute of Chemical Engineers, San Francisco, CA, November 2006.

29. Cameron F. Abrams, “Crazing and Entanglements in Glassy Polymers,” FOMMS 2006, Semiahmoo, WA, 9-14 July 2006.

28. Nam-Kyung Lee, Cameron F. Abrams, and Albert Johner, “Optimal Confinement for Internal Polymer Binding” American Physical Society March Meeting, Baltimore, MD, 13 March 2006.

27. David Richardson and Cameron F. Abrams, “Entanglement Effects in Plastic Deformation of Linear Polymer Glasses,” American Physical Society March Meeting, Baltimore, MD, 17 March 2006.

26. Ehsan Jabbarzadeh and Cameron F. Abrams, “Strategies to Enhance Capillary Formation inside Biomaterials: A Computational Study,” 2005 Annual Meeting of the American Institute of Chemical Engineers, Cincinnati, OH, November 2005.

25. Yelena Sliozberg and Cameron F. Abrams, “Density-of-States Simulation of Collapse of Confined Heteropolymers,” Annual Meeting of the American Institute of Chemical Engineers, Cincinnati, OH, November 2005.

24. David Richardson and Cameron F. Abrams, “Entanglement Effects in the Plastic Deformation of Filled Polymer Glasses: A Simulation Study,” Annual Meeting of the American Institute of Chemical Engineers, Cincinnati, OH, November 2005.

23. Yelena Sliozberg and Cameron F. Abrams, “Density-of-States Simulation of Collapse of Confined Heteropolymers,” American Physical Society March Meeting, Los Angeles, 2005.

22. Ehsan Jabbarzadeh and Cameron F. Abrams, “Simulation of cell chemotaxis in 2D random porous domains,” Gordon Research Conference on Gradient Sensing and Directed Cell Migration, Ventura, CA, February 2005.

21. Cameron F. Abrams, “Resolution Focusing in Molecular Simulation of Liquids,” 2004 Annual Meeting of the American Institute of Chemical Engineers, Austin, TX, November 2004.

20. Ehsan Jabbarzadeh and Cameron F. Abrams, “Chemotaxis and random motility in unsteady chemoattractant fields: A computational study,” Annual Meeting of the American Institute of Chemical Engineers, Austin, TX, November 2004.

19. Yelena Sliozberg and Cameron F. Abrams, “Molecular simulation of branched amphiphilic heteropolymers in confined geometries,” Annual Meeting of the American Institute of Chemical Engineers, Austin, TX, November 2004.

18. Ehsan Jabbarzadeh and Cameron F. Abrams, “Chemotactic Cell Migration in Inhomogeneous Domains: A Computational Study,” 2004 BMES Annual Fall Meeting, Philadelphia, 16 October 2004.

17. Ehsan Jabbarzadeh and Cameron F. Abrams, “Computational Studies of Cell Migration,” 30th Annual Northeast Bioengineering Conference, Springfield, MA, 2004.

16. Ehsan Jabbarzadeh and Cameron F. Abrams, “Computational Studies of Cell Migration,” 17th Annual Mid-Atlantic Biochemical Engineering Meeting, University of Maryland, Baltimore County, 2004.

15. Yelena Sliozberg, Nam-Kyung Lee, and Cameron F. Abrams.  “Molecular Dynamics Simulation of Intramolecular Self-Assembly in Polysoaps”, Annual Meeting of the American Institute of Chemical Engineers, San Francisco, California, November 2003.

14. Cameron F. Abrams, Luigi Delle Site, and Kurt Kremer.  “Multiscale Molecular Dynamics Simulation of the Liquid Polycarbonate/Nickel (111) Interface,” Materials Research Society Fall Meeting 2002, Boston, MA, 2-6 December 2002.

13. Cameron F. Abrams, Nam-Kyung Lee, and Sergei Obukhov.  “A Combined Simulation and Theoretical Study of Homopolymer Collapse,” Annual Meeting of the American Institute of Chemical Engineers, Indianapolis, Indiana, 3-8 November 2002.

12. Cameron F. Abrams and Kurt Kremer.  “Multiscale Simulation of Bisphenol-A-Polycarbonate,” CIMTEC 2002, 3rd Forum on New Materials, Florence, Italy, 14-18 July 2002.

11. Cameron F. Abrams and Kurt Kremer.  “Structure and Dynamics of Polycarbonate Melts via Novel Coarse-Grained Molecular Dynamics Simulation,” Annual Meeting of the American Institute of Chemical Engineers, Reno, Nevada, 4-9 November 2001.

10. Cameron F. Abrams and David B. Graves.  “Product Formation Mechanisms in Fluorocarbon Ion Etching of Silicon via Atomistic Simulation,” Annual Meeting of the American Institute of Chemical Engineers, Reno, Nevada, 4-9 November 2001.

9.   V. V. Serikov, S. Kawamoto, Cameron F. Abrams, and David B. Graves. “Atomic scale simulation of plasma-assisted deposition of diamond-like carbon films,” 22nd International Symposium on Rarefied Gas Dynamics, Syndey, Australia, 9-14 July 2000.

8.   Cameron F. Abrams and David B. Graves.  “Deposition and Etching Using Fluorocarbon Ions:  Molecular Dynamics Simulations,” Annual Meeting of the American Institute of Chemical Engineers, Dallas, Texas, 31 October - 5 November 1999.

7.   Cameron F. Abrams and David B. Graves.  “Deposition and Etching Using Fluorocarbon Ions: Molecular Dynamics Simulations,” 46th International Symposium of the American Vacuum Society, Seattle, Washington, 25-29 October 1999.

6.   Junichi Tanaka, Cameron F. Abrams, and David B. Graves.  “Molecular Dynamics Simulations of Fluorocarbon Films,” 46th International Symposium of the American Vacuum Society, Seattle, Washington, 25-29 October 1999.

5.   Cameron F. Abrams and David B. Graves.  “Scattering and Sputtering Processes of Energetic Ar+ and Cu+ Ions on Cu Surfaces: Molecular Dynamics Simulations,” 45th International Symposium of the American Vacuum Society, Baltimore, Maryland, 2-6 November 1998.

4.   Cameron F. Abrams and David B. Graves.  “Scattering and Sputtering Processes of Energetic Ar+ and Cu+ Ions on Cu Surfaces: Molecular Dynamics Simulations,” 51st Annual Gaseous Electronics Conference of the American Institute of Physics, Maui, Hawaii, 19-22 October 1998.

3.   Cameron F. Abrams and David B. Graves. “Molecular Dynamics Simulations of Ar+ and Cu+ Impacts onto Cu Surfaces: Product Spatiokinetic Distributions,” Northern California Chapter of the American Vacuum Society Thin Films User Group Symposium, Foster City, California, 12 October 1998.

2.   Cameron F. Abrams and David B. Graves.  “Scattering and Sputtering Processes of Energetic Ar+ and Cu+ Ions on Cu Surfaces: Molecular Dynamics Simulations,”  Gordon Research Conference on Plasma Processing Science, Tilton School, New Hampshire, 9-14 August 1998.

1.   Cameron F. Abrams and David B. Graves.  “Energy and Angular Distributions of Argon Ions Reflected from SiO2 Surfaces: Molecular Dynamics Simulations,” 44th International Symposium of the American Vacuum Society, San Jose, California, 20-24 October 1998.