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Elif Ozkirimli, Ph.D. - Publications

Affiliations: 
2006 Purdue University, West Lafayette, IN, United States 
Area:
Biochemistry, General Biophysics
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22 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2018 Öztürk H, Özgür A, Ozkirimli E. DeepDTA: deep drug-target binding affinity prediction. Bioinformatics (Oxford, England). 34: i821-i829. PMID 30423097 DOI: 10.1093/Bioinformatics/Bty593  0.314
2018 Avci FG, Altinisik FE, Karacan I, Senturk Karagoz D, Ersahin S, Eren A, Sayar NA, Vardar Ulu D, Ozkirimli E, Sariyar Akbulut B. Targeting a hidden site on class A beta-lactamases. Journal of Molecular Graphics & Modelling. 84: 125-133. PMID 29960255 DOI: 10.1016/J.Jmgm.2018.06.007  0.377
2018 Alaybeyoglu B, Sariyar Akbulut B, Ozkirimli E. pVEC hydrophobic N-terminus is critical for antibacterial activity. Journal of Peptide Science : An Official Publication of the European Peptide Society. e3083. PMID 29737576 DOI: 10.1002/Psc.3083  0.353
2017 Yilmazer B, Yagci ZB, Bakar E, Ozden B, Ulgen K, Ozkirimli E. Investigation of novel pharmacological chaperones for Gaucher Disease. Journal of Molecular Graphics & Modelling. 76: 364-378. PMID 28763689 DOI: 10.1016/J.Jmgm.2017.07.014  0.347
2017 Bayraktar O, Ozkirimli E, Ulgen K. Sphingosine kinase 1 (SK1) allosteric inhibitors that target the dimerization site. Computational Biology and Chemistry. 69: 64-76. PMID 28587987 DOI: 10.1016/J.Compbiolchem.2017.05.006  0.408
2017 Alaybeyoglu B, Uluocak BG, Akbulut BS, Ozkirimli E. The effect of a beta-lactamase inhibitor peptide on bacterial membrane structure and integrity: a comparative study. Journal of Peptide Science : An Official Publication of the European Peptide Society. PMID 28299853 DOI: 10.1002/Psc.2986  0.316
2016 Bayraktar O, Ozkirimli E, Ulgen KO. In Silico Identification of Novel Orthosteric Inhibitors of Sphingosine Kinase 1 (SK1). Current Protein & Peptide Science. PMID 27829348 DOI: 10.2174/1389203718666161108092842  0.386
2016 Deniz U, Ozkirimli E, Ulgen KO. A systematic methodology for large scale compound screening: A case study on the discovery of novel S1PL inhibitors. Journal of Molecular Graphics & Modelling. 63: 110-24. PMID 26724452 DOI: 10.1016/J.Jmgm.2015.11.004  0.371
2016 Alaybeyoglu B, Sariyar Akbulut B, Ozkirimli E. Insights into membrane translocation of the cell-penetrating peptide pVEC from molecular dynamics calculations. Journal of Biomolecular Structure & Dynamics. 1-12. PMID 26569019 DOI: 10.1080/07391102.2015.1117396  0.338
2015 Deniz U, Ulgen KO, Ozkirimli E. Identification of potential Tpx inhibitors against pathogen-host interactions. Computational Biology and Chemistry. 58: 126-38. PMID 26189127 DOI: 10.1016/J.Compbiolchem.2015.05.005  0.374
2015 Öztürk H, Ozkirimli E, Özgür A. Classification of Beta-lactamases and penicillin binding proteins using ligand-centric network models. Plos One. 10: e0117874. PMID 25689853 DOI: 10.1371/Journal.Pone.0117874  0.305
2015 Alaybeyoglu B, Akbulut BS, Ozkirimli E. A novel chimeric peptide with antimicrobial activity. Journal of Peptide Science : An Official Publication of the European Peptide Society. 21: 294-301. PMID 25597294 DOI: 10.1002/Psc.2739  0.319
2014 Alaybeyoglu B, Ozkirimli E. Analysis of Membrane Translocation Simulations using Dimensionality Reduction Biophysical Journal. 106. DOI: 10.1016/J.Bpj.2013.11.4415  0.33
2013 Meneksedag D, Dogan A, Kanlikilicer P, Ozkirimli E. Communication between the active site and the allosteric site in class A beta-lactamases. Computational Biology and Chemistry. 43: 1-10. PMID 23314151 DOI: 10.1016/J.Compbiolchem.2012.12.002  0.348
2012 Kutlu Ulgen S, Aladag S, Ozkirimli E. Virtual Screening and Docking of Potential Protein Kinase B Inhibitors Biophysical Journal. 102: 60a-61a. DOI: 10.1016/J.Bpj.2011.11.361  0.421
2010 Ozkaral B, Ozkan A, Alakent B, Ozkirimli E. Dynamic Analysis of Phosphatase 1B WPD Loop Biophysical Journal. 98. DOI: 10.1016/J.Bpj.2009.12.2389  0.388
2009 Huang H, Ozkirimli E, Post CB. A Comparison of Three Perturbation Molecular Dynamics Methods for Modeling Conformational Transitions. Journal of Chemical Theory and Computation. 5: 1301-1314. PMID 20161143 DOI: 10.1021/Ct9000153  0.559
2009 Ozkirimli E, Keskin O. The Role Of Dynamics On Binding Specificity And Promiscuity Biophysical Journal. 96: 443a. DOI: 10.1016/J.Bpj.2008.12.2275  0.3
2009 Kanlikilicer P, Budeyri N, Akbulut BS, Hortacsu A, Ozkirimli E. Dynamic Analysis of Beta-lactamase Ligand Recognition Biophysical Journal. 96. DOI: 10.1016/J.Bpj.2008.12.2274  0.35
2008 Ozkirimli E, Yadav SS, Miller WT, Post CB. An electrostatic network and long-range regulation of Src kinases. Protein Science : a Publication of the Protein Society. 17: 1871-80. PMID 18687871 DOI: 10.1110/Ps.037457.108  0.584
2007 Oh H, Ozkirimli E, Shah K, Harrison ML, Geahlen RL. Generation of an analog-sensitive Syk tyrosine kinase for the study of signaling dynamics from the B cell antigen receptor. The Journal of Biological Chemistry. 282: 33760-8. PMID 17913708 DOI: 10.1074/Jbc.M704846200  0.344
2006 Ozkirimli E, Post CB. Src kinase activation: A switched electrostatic network. Protein Science : a Publication of the Protein Society. 15: 1051-62. PMID 16597828 DOI: 10.1110/Ps.051999206  0.582
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