Publications

  1. O Tayfuroglu, M Yildiz, LW Pearson, A Kocak, “An Accurate Free Energy Method for Solvation of Organic Compounnds and Binding to Proteins“, bioRxiv 2020.05.26.116459,  https://doi.org/10.1101/2020.05.26.116459
  2. O Tayfuroglu, A Kocak, Y Zorlu,”In Silico Investigation into H2 Uptake in MOFs: Combined Text/Data Mining and Structural Calculations” Langmuir 2019 36 (1), 119-129 https://doi.org/10.1021/acs.langmuir.9b03618
  3. A Kocak, “HBGA binding modes and selectivity in noroviruses upon mutation: a docking and molecular dynamics study.” J Mol Model 25,369 2019. https://doi.org/10.1007/s00894-019-4261-7
  4. A Kocak, M Yildiz, “Computational Interrogation of The Human Norovirus-Host Cell Interactions Facilitated by A-Type Antigen.” Sakarya University Journal of Science, 23(6), 1056-1065, 2019 https://doi.org/10.16984/saufenbilder.525430
  5. M Yildiz and A Kocak, “Molecular Dynamics Studies of Histo-Blood Group Antigen Blocking Human Immunoglobulin A Antibody and Escape Mechanism in Noroviruses Upon Mutation” Journal of Computational Biology. Sep 2019.962-974. http://doi.org/10.1089/cmb.2018.0163
  6. Kocak A , Yıldız M. “MOLECULAR DYNAMICS STUDIES OF THE NOROVIRUS-HOST CELL INTERACTION MEDIATED BY H-TYPE 1 ANTIGEN“. Trakya University Journal of Natural Sciences 20 / 1 (Nisan 2019): 19-26 . https://doi.org/10.23902/trkjnat.508120
  7. Kocak A, Erol I, Yildiz M, Can H, “Computational insights into the protonation states of catalytic dyad in BACE1-acyl guanidine based inhibitor complex” J Mol Graph Model. 2016, 70:226-235. https://doi.org/10.1016/j.jmgm.2016.10.013