Pemra Ozbek

12 papers Journal 12
YearRankTypeTitle / Venue / Authors
2026 J jnl
Allosteric Insights into TCR-pMHC Dynamics: Understanding the Effects of Melanoma-Associated Epitopes.
J. Chem. Inf. Model.
Elif Naz Bingöl, Pemra Ozbek
2022 J jnl
Assessment of 13
Comput. Biol. Medicine
Metin Yazar, Pemra Ozbek
2021 J jnl
Differential Interactome Based Drug Repositioning Unraveled Abacavir, Exemestane, Nortriptyline Hydrochloride, and Tolcapone as Potential Therapeutics for Colorectal Cancers.
Frontiers Bioinform.
Hande Beklen, Sema Arslan, Gizem Gulfidan, Beste Turanli, Pemra Ozbek, Betül Karademir Yilmaz, Kazim Yalçin Arga
2021 J jnl
Unraveling the Allosteric Communication Mechanisms in T-Cell Receptor-Peptide-Loaded Major Histocompatibility Complex Dynamics Using Molecular Dynamics Simulations: An Approach Based on Dynamic Cross Correlation Maps and Residue Interaction Energy Calculations.
J. Chem. Inf. Model.
Elif Naz Bingöl, Onur Serçinoglu, Pemra Ozbek
2020 J jnl
Computational investigation of peptide binding stabilities of HLA-B*27 and HLA-B*44 alleles.
Comput. Biol. Chem.
Asuman Bunsuz, Onur Serçinoglu, Pemra Ozbek
2020 J jnl
Revisiting allostery in CREB-binding protein (CBP) using residue-based interaction energy.
J. Comput. Aided Mol. Des.
Metin Yazar, Pemra Ozbek
2019 J jnl
ProSNEx: a web-based application for exploration and analysis of protein structures using network formalism.
Nucleic Acids Res.
Rasim Murat Aydinkal, Onur Serçinoglu, Pemra Ozbek
2018 J jnl
gRINN: a tool for calculation of residue interaction energies and protein energy network analysis of molecular dynamics simulations.
Nucleic Acids Res.
Onur Serçinoglu, Pemra Ozbek
2016 J jnl
A computational docking study on the pH dependence of peptide binding to HLA-B27 sub-types differentially associated with ankylosing spondylitis.
J. Comput. Aided Mol. Des.
Onur Serçinoglu, Gülin Özcan, Zeynep Kutlu Kabas, Pemra Ozbek
2016 J jnl
Dynamic characterization of HLA-B*44 Alleles: A comparative molecular dynamics simulation study.
Comput. Biol. Chem.
Pemra Ozbek
2015 J jnl
DynaFace: Discrimination between Obligatory and Non-obligatory Protein-Protein Interactions Based on the Complex's Dynamics.
PLoS Comput. Biol.
Seren Soner, Pemra Ozbek, José Ignacio Garzón, Nir Ben-Tal, Turkan Haliloglu
2010 J jnl
DNABINDPROT: fluctuation-based predictor of DNA-binding residues within a network of interacting residues.
Nucleic Acids Res.
Pemra Ozbek, Seren Soner, Burak Erman, Turkan Haliloglu