Elif Ozkirimli

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Arzucan OzgurDepartment of Computer Engineering, Bogazici UniversityVerified email at boun.edu.tr
Hakime ÖztürkEMBLVerified email at embl.de
Berna Sariyar AkbulutMarmara UniversityVerified email at marmara.edu.tr
Kutlu O. UlgenProfessor of Chemical Engineering, Bogazici UniversityVerified email at boun.edu.tr
Fatma Gizem AvcıÜsküdar ÜniversitesiVerified email at uskudar.edu.tr
Begum AlaybeyogluMassachusetts Institute of TechnologyVerified email at mit.edu
Rıza ÖzçelikPh.D. Candidate, Biomedical Engineering, Eindhoven University of TechnologyVerified email at tue.nl
Abdullatif KöksalCIS - Ludwig Maximillian University of MunichVerified email at lmu.de
Burak AlakentAssociate Professor of Chemical Engineering, Bogazici UniversityVerified email at boun.edu.tr
Nihat Alpagu SayarProfessor of Bioengineering, Marmara UniversityVerified email at marmara.edu.tr
Philippe SchwallerAssistant Professor, Laboratory of Artificial Chemical Intelligence - EPFLVerified email at epfl.ch
Teodoro LainoIBM Research ZurichVerified email at zurich.ibm.com
Pinar KanlikilicerMD Anderson Cancer CenterVerified email at mdanderson.org
Fatma Ece Altınışık KayaMarmara ÜniversitesiVerified email at marmara.edu.tr
Hilal DönmezMSc. Student @ Computer Engineering, Boğaziçi UniversityVerified email at boun.edu.tr
Robert GeahlenDistinguished Professor of Medicinal Chemistry, Purdue UniversityVerified email at purdue.edu
Kavita ShahPurdueVerified email at purdue.edu
Naze Gul AvciAshvattha TherapeuticsVerified email at avttx.com
Sumru ÖzkırımlıProfessorVerified email at istanbul.edu.tr
Atakan YukselBoğaziçi UniversityVerified email at boun.edu.tr

Elif Ozkirimli

Head of Data Science and Advanced Analytics, Roche

Verified email at boun.edu.tr

Bioinformatics Computational Biology Structural Biology Natural Language Processing


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
DeepDTA: deep drug–target binding affinity prediction H Öztürk, A Özgür, E Ozkirimli Bioinformatics 34 (17), i821-i829, 2018	1259	2018
WideDTA: prediction of drug-target binding affinity H Öztürk, E Ozkirimli, A Özgür arXiv preprint arXiv:1902.04166, 2019	232	2019
Membrane active peptides and their biophysical characterization FG Avci, B Sariyar Akbulut, E Ozkirimli Biomolecules 8 (3), 77, 2018	192	2018
Exploring chemical space using natural language processing methodologies for drug discovery H Öztürk, A Özgür, P Schwaller, T Laino, E Ozkirimli Drug Discovery Today 25 (4), 689-705, 2020	159	2020
A comparative study of SMILES-based compound similarity functions for drug-target interaction prediction H Öztürk, E Ozkirimli, A Özgür BMC bioinformatics 17, 1-11, 2016	145	2016
Classification of beta-lactamases and penicillin binding proteins using ligand-centric network models H Öztürk, E Ozkirimli, A Özgür PloS one 10 (2), e0117874, 2015	109	2015
A survey on causal discovery: theory and practice A Zanga, E Ozkirimli, F Stella International Journal of Approximate Reasoning 151, 101-129, 2022	95	2022
Src kinase activation: A switched electrostatic network E Ozkirimli, CB Post Protein Science 15 (5), 1051-1062, 2006	91	2006
Balancing methods for multi-label text classification with long-tailed class distribution Y Huang, B Giledereli, A Köksal, A Özgür, E Ozkirimli arXiv preprint arXiv:2109.04712, 2021	84	2021
Crowdsourced mapping of unexplored target space of kinase inhibitors A Cichońska, B Ravikumar, RJ Allaway, F Wan, S Park, O Isayev, S Li, ... Nature communications 12 (1), 3307, 2021	76	2021
An electrostatic network and long‐range regulation of Src kinases E Ozkirimli, SS Yadav, WT Miller, CB Post Protein Science 17 (11), 1871-1880, 2008	72	2008
Comparison of three perturbation molecular dynamics methods for modeling conformational transitions H Huang, E Ozkirimli, CB Post Journal of Chemical Theory and Computation 5 (5), 1304-1314, 2009	67	2009
A novel methodology on distributed representations of proteins using their interacting ligands H Öztürk, E Ozkirimli, A Özgür Bioinformatics 34 (13), i295-i303, 2018	46	2018
Alpha7 helix plays an important role in the conformational stability of PTP1B E Ozkirimli Olmez, B Alakent Journal of Biomolecular Structure and Dynamics 28 (5), 675-693, 2011	38	2011
Generation of an analog-sensitive Syk tyrosine kinase for the study of signaling dynamics from the B cell antigen receptor H Oh, E Ozkirimli, K Shah, ML Harrison, RL Geahlen Journal of Biological Chemistry 282 (46), 33760-33768, 2007	37	2007
ChemBoost: A Chemical Language Based Approach for Protein–Ligand Binding Affinity Prediction R Özçelik, H Öztürk, A Özgür, E Ozkirimli Molecular Informatics, 2021	36*	2021
A systematic methodology for large scale compound screening: A case study on the discovery of novel S1PL inhibitors U Deniz, E Ozkirimli, KO Ulgen Journal of Molecular Graphics and Modelling 63, 110-124, 2016	32	2016
Superior inhibition of influenza virus hemagglutinin-mediated fusion by indole-substituted spirothiazolidinones G Cihan-Üstündağ, M Zopun, E Vanderlinden, E Ozkirimli, L Persoons, ... Bioorganic & medicinal chemistry 28 (1), 115130, 2020	27	2020
The uptake mechanism of the cell penetrating pVEC peptide IO Akdag, E Ozkirimli	27	2013
Labels in a haystack: Approaches beyond supervised learning in biomedical applications A Yakimovich, A Beaugnon, Y Huang, E Ozkirimli Patterns 2 (12), 2021	26	2021

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