1. Sarkar-Banerjee S, Sayyed-Ahmad A, Prakash P, Cho KJ, Waxham MN, Hancock JF, and Gorfe AA “Spatiotemporal analysis of K-Ras plasma membrane interactions reveals multiple high order homo-oligomeric complexes”, Journal of American Chemical Society, 139 (38), 13466-13475, 2017.
  2. Sayyed-Ahmad A, Prakash P and Gorfe AA “Distinct dynamics and interaction patterns in H and K-Ras oncogenic P-loop mutants”. Proteins: Structure, Function, and Bioinformatics, 85 (9), 1618–1632, 2017.
  3. Sayyed-Ahmad A and Gorfe AA “Mixed-probe simulation and probe-derived surface topography map analysis for ligand binding site identification”, Journal of chemical theory and computation, 13 (4), 1851-1861, 2017.
  4. Prakash P, Sayyed-Ahmad A, Cho, KJ, Dolino DM, Chen W, Li H, Grant BJ, Hancock JF and Gorfe AA “Computational and biochemical characterization of two partially overlapping interfaces and multiple weak-affinity K-Ras dimers”, Scientific Reports, 7 (p.40109), 2017.
  5. Sayyed-Ahmad A, Cho KJ, Hancock JF and Gorfe AA, “Computational Equilibrium Thermodynamic and Kinetic Analysis of K-Ras Dimerization through an Effector Binding Surface Suggests Limited Functional Role”, Journal of Physical Chemistry B, 120 (33), 8547-8556,2016.
  6. Prakash P, Sayyed-Ahmad A and Gorfe AA, "pMD-membrane: A method for ligand binding site identification in membrane-bound proteins.", PLoS computational biology11(10): e1004469, 2015.
  7. Naddaf L and Sayyed-Ahmad A, “Intracellular Crowding Effects on The Self-Association of Bacterial Cell Division Protein FtsZ”, archives of biochemistry and biophysics, Archives, 564, 12-19,2014.
  8. Bolintineanu DS, Volzing K, Vivcharuk V, Sayyed-Ahmad A, Srivastava P and Kaznessis YN “Investigation of Changes in Tetracycline Repressor Binding Upon Mutations in the Tetracycline Operator“, Journal of Chemical & Engineering Data, 59 (10), 3167-3176, 2014.
  9. Sader E and Sayyed-Ahmad A, “Design of an optical water pollution sensor using a single-layer guided-mode resonance filter”, Photonic Sensors, 3(3):224, 2013.
  10. Prakash P,Sayyed-Ahmad A, Zhou Y, Volk DE, Gorenstein DG, Dial E, Lichtenberger LM and Gorfe AA,“Aggregation Behavior of Ibuprofen, cholic acid and dodecylphosphocholine micelles”, Biochimica et Biophysica Acta (BBA)-Biomembranes, 1818(12), 2012.
  11. Prakash P, Sayyed-Ahmad A, Gorfe AA “The Role of Conserved Waters in Conformational Transitions of Q61H K-ras”, PLoS computational biology, 8 (2): e1002394. doi:10.1371/journal.pcbi.1002394, 2012.
  12. Sayyed-Ahmad A, Lichtenberger, LM and Gorfe AA, “Structure and dynamics of cholic acid and dodecylphosphocholine-cholic acid aggregates”, Langmuir, 2010, 26(16):13407-13414.
  13. Sayyed-Ahmad A, Khandelia H and Kaznessis YN “Relative Binding Free Energy Calculations between Antimicrobial Peptides and SDS or DPC micelles”, Molecular Simulation, 2009, 35(10-11):986-997.
  14. Sayyed-Ahmad A and Kaznessis YN “Determining the orientation of the Beta-hairpin antimicrobial peptide Protegrin-1 in a DLPC lipid bilayer using an implicit solvent-membrane model”, PLoS One 2009;4(3):e479.
  15. Bolintineanu DS, Sayyed-Ahmad A, Davis HT and Kaznessis YN “Poisson-Nernst-Planck models of nonequilibrium ion electrodiffusion through a protegrin transmembrane pore”, PLoS computational biology, 5 (1): e1000277, 2009.
  16. Langham A, Sayyed-Ahmad A and Kaznessis YN “On the nature of antimicrobial activity: a model for Protegrin-1”, Journal of American Chemical Society, 130(13):4338-4346, 2008.
  17. Sayyed-Ahmad A, Miao Y and Ortoleva P “Poisson-Boltzmann Theory of Bionanosystems”, Communications in Computational Physics, 3:1100-1116, 2008.
  18. Lee J, Sayyed-Ahmad A, Sheen D “Basin Model Inversion Using Information Theory and Seismic Data”, Geophysics 72:6, 2007.
  19. Sayyed-Ahmad A, Tuncay K, and Ortoleva P “Transcriptional regulatory network refinement and quantification through kinetic modeling, gene expression microarray data and information theory”, BMC Bioinformatics, 8:20, 2007. (Research highlights & Highly Accessed).
  20. Sayyed-Ahmad A, Tuncay K, and Ortoleva P “Efficient solution technique for solving Poisson Boltzmann equation”, Journal of Computational Chemistry, 2004, 25(8):1068-1074.
  21. Sayyed-Ahmad A, Tuncay K, and Ortoleva P “Toward Automated Cell Model Development through Information Theory”, Journal of Physical Chemistry A, 2003, 107(49):10554-10565.
  22. Ortoleva P, Berry E, Fan J , Fontus M, Navid A, Sayyed-Ahmad A, Sharif Z, Stanley F, Tuncay K, Weitzke E, and Wu L ”Karyote physico-chemical genome, proteome, metabolome cell modeling system”, Omics: A Journal of Integrative Biology, 2003, 7(3):269-283(15).

©  Abdallah Sayyed-Ahmad 2018