Jeffrey Comer

At the 2010 Workshop on Leadership-class Machines

e-mail: 
@illinois.edu
phone: 
(217) 721-1774
office: 
261 LLP

Loomis Laboratory of Physics
1110 West Green Street
Urbana, IL 61801-3080

Received his B.S. from the University of Akron, Akron, OH in 2005 and his Ph.D. from the University of Illinois, Urbana, IL in 2010. His research interests include method development for modeling hybrid inorganic/biological systems, especially those systems where pertinent phenomena occur on a wide range of time and length scales.

Curriculum Vitae

Publications

  1. Jehanzeb Hameed Chaudhry, Jeffrey Comer, Aleksei Aksimentiev, and Luke N. Olson. "A Stabilized Finite Element Method for Modified Poisson-Nernst-Planck Equations to Determine Ion Flow Through a Nanopore." Commun Comput Phys 15:93-125 (2014).
  2. Winston Timp, Jeffrey Comer, and Aleksei Aksimentiev. "DNA base-calling from a nanopore using a Viterbi algorithm." Biophys J 102:L37-9 (2012).
  3. Jeffrey Comer, and Aleksei Aksimentiev. "Predicting the DNA sequence dependence of nanopore ion current using atomic-resolution Brownian dynamics." J Phys Chem C Nanomater Interfaces 116:3376-3393 (2012).
  4. Jeffrey Comer, Anthony H. Ho, and Aleksei Aksimentiev. "Toward detection of DNA-bound proteins using solid-state nanopores: insights from computer simulations." Electrophoresis 33:3466-79 (2012).
  5. David B. Wells, Maxim Belkin, Jeffrey Comer, and Aleksei Aksimentiev. "Assessing graphene nanopores for sequencing DNA." Nano Letters 12:4117-4123 (2012).
  6. David B. Wells, Swati Bhattacharya, Rogan Carr, Christopher Maffeo, Anthony H. Ho, Jeffrey Comer, and Aleksei Aksimentiev. "Optimization of the molecular dynamics method for simulations of DNA and ion transport through biological nanopores." Methods Mol Biol 870:165-86 (2012).
  7. Rogan Carr, Jeffrey Comer, Mark D. Ginsberg, and Aleksei Aksimentiev. "Atoms-to-microns model for small solute transport through sticky nanochannels." Lab Chip 11:3766-73 (2011).
  8. Rogan Carr, Jeffrey Comer, Mark D. Ginsberg, and Aleksei Aksimentiev. "Microscopic Perspective on the Adsorption Isotherm of a Heterogeneous Surface." J Phys Chem Lett 2:1804-1807 (2011).
  9. Rogan Carr, Jeffrey Comer, Mark D. Ginsberg, and Aleksei Aksimentiev. "Modeling Pressure-Driven Transport of Proteins through a Nanochannel." IEEE Trans Nanotechnol 10:75-82 (2011).
  10. Bala Murali Venkatesan, James Polans, Jeffrey Comer, Supriya Sridhar, David Wendell, Aleksei Aksimentiev, and Rashid Bashir. "Lipid bilayer coated Al(2)O(3) nanopore sensors: towards a hybrid biological solid-state nanopore." Biomed Microdevices 13:671-82 (2011).
  11. Jeffrey Comer, David B. Wells, and Aleksei Aksimentiev. "Modeling nanopores for sequencing DNA." In DNA Nanotechnology: Methods and Protocols, edited by Giampaolo Zuccheri and Bruno Samori, 317-358. Vol. 749. Methods Mol. Biol. 749., 2011.
  12. Utkur Mirsaidov, Jeffrey Comer, Valentin Dimitrov, Aleksei Aksimentiev, and Gregory Timp. "Slowing the translocation of double-stranded DNA using a nanopore smaller than the double helix." Nanotechnology 21:395501 (2010).
  13. Winston Timp, Utkur M. Mirsaidov, Deqiang Wang, Jeffrey Comer, Aleksei Aksimentiev, and Gregory Timp. "Nanopore Sequencing: Electrical Measurements of the Code of Life." IEEE Trans Nanotechnol 9:281-294 (2010).
  14. Aleksei Aksimentiev, Robert Brunner, Eduardo Cruz-Chú, Jeffrey Comer, and Klaus Schulten. "Modeling Transport Through Synthetic Nanopores." IEEE Nanotechnol Mag 3:20-28 (2009).
  15. B Dorvel, G Sigalov, Q Zhao, Jeffrey Comer, Valentin Dimitrov, U Mirsaidov, Aleksei Aksimentiev, and Gregory Timp. "Analyzing the forces binding a restriction endonuclease to DNA using a synthetic nanopore." Nucleic Acids Res 37:4170-9 (2009).
  16. Jeffrey Comer, Valentin Dimitrov, Qian Zhao, Gregory Timp, and Aleksei Aksimentiev. "Microscopic mechanics of hairpin DNA translocation through synthetic nanopores." Biophys J 96:593-608 (2009).
  17. Q Zhao, Jeffrey Comer, Valentin Dimitrov, S Yemenicioglu, Aleksei Aksimentiev, and Gregory Timp. "Stretching and unzipping nucleic acid hairpins using a synthetic nanopore." Nucleic Acids Res 36:1532-41 (2008).
  18. G Sigalov, Jeffrey Comer, Gregory Timp, and Aleksei Aksimentiev. "Detection of DNA sequences using an alternating electric field in a nanopore capacitor." Nano Lett 8:56-63 (2008).
  19. Aleksei Aksimentiev, Robert Brunner, Jordi Cohen, Jeffrey Comer, Eduardo Cruz-Chú, David Hardy, Aruna Rajan, Amy Y. Shih, G Sigalov, Ying Yin, and Klaus Schulten. "Computer modeling in biotechnology: a partner in development." Methods Mol Biol 474:181-234 (2008).