Protein Structural Class Determination Using Support Vector Machines. - Zerrin Isik; Berrin A. Yanikoglu; Osman Ugur Sezerman (ISCIS, 2004)

Functional Classification of G-Protein Coupled Receptors, Based on Their Specific Ligand Coupling Patterns. - Burcu Bakir; Osman Ugur Sezerman (EvoWorkshops, 2006)

Prediction and Classification for GPCR Sequences Based on Ligand Specific Features. - Bekir Ergüner; Özgün Erdogan; Osman Ugur Sezerman (ISCIS, 2006)

Modified Association Rule Mining Approach for the MHC-Peptide Binding Problem. - Galip Gürkan Yardimci; Alper Küçükural; Yücel Saygin; Osman Ugur Sezerman (ISCIS, 2006)

Potential Use of Graph Theoretical Properties of Protein Structures in Structural Alignment. - Alper Küçükural; Osman Ugur Sezerman (BIOCOMP, 2007)

Evolutionary selection of minimum number of features for classification of gene expression data using genetic algorithms. - Alper Küçükural; Reyyan Yeniterzi; Süveyda Yeniterzi; Osman Ugur Sezerman (GECCO, 2007)

Discrimination of proteins using graph theoretic properties. - Alper Küçükural; Osman Ugur Sezerman (BMC Syst. Biol., 2007)

Application of Automatic Mutation-gene Pair Extraction to Diseases. - Müge Erdogmus; Osman Ugur Sezerman (J. Bioinform. Comput. Biol., 2007)

Discrimination of Native Folds Using Network Properties of Protein Structures. - Alper Küçükural; Osman Ugur Sezerman; Aytül Erçil (APBC, 2008)

Discovery of Biomarkers for Hexachlorobenzene Toxicity Using Population Based Methods on Gene Expression Data. - Cem Meydan; Alper Küçükural; Deniz Yörükoglu; Osman Ugur Sezerman (PRIB, 2008)

Optimization of morphological data in numerical taxonomy analysis using genetic algorithms feature selection method. - Yasin Bakis; Osman Ugur Sezerman; M. Tekin Babaç; Cem Meydan (GECCO (Companion), 2009)

An entropy based heuristic model for predicting functional sub-type divisions of protein families. - Deniz Yörükoglu; Yasin Bakis; Osman Ugur Sezerman (GECCO (Companion), 2009)

Prediction of Peptides Binding to MHC Class I Alleles by Partial Periodic Pattern Mining. - Cem Meydan; Osman Ugur Sezerman; Hasan H. Otu (IJCBS, 2009)

An Ariadne's thread to the identification and annotation of noncoding RNAs in eukaryotes. - Giulia Soldà; Igor V. Makunin; Osman Ugur Sezerman; Alberto Corradin; Giorgio Corti; Alessandro Guffanti (Briefings Bioinform., 2009)

EnzyMiner: automatic identification of protein level mutations and their impact on target enzymes from PubMed abstracts. - Süveyda Yeniterzi; Osman Ugur Sezerman (BMC Bioinform., 2009)

DockPro: A VR-Based Tool for Protein-Protein Docking Problem. - Serdar Cakici; Selcuk Sumengen; Osman Ugur Sezerman; Selim Balcisoy (Int. J. Virtual Real., 2009)

Clustering of protein families into functional subtypes using Relative Complexity Measure with reduced amino acid alphabets. - Aydin Albayrak; Hasan H. Otu; Osman Ugur Sezerman (BMC Bioinform., 2010)

Biomarker discovery for toxicity. - Cem Meydan; Osman Ugur Sezerman (Neurocomputing, 2010)

Classification of GPCRs Using Family Specific Motifs. - Murat Can Cobanoglu; Yücel Saygin; Osman Ugur Sezerman (IEEE ACM Trans. Comput. Biol. Bioinform., 2011)

Representation of Protein Secondary Structure Using Bond-Orientational Order Parameters. - Cem Meydan; Osman Ugur Sezerman (PRIB, 2012)

Pattern Recognition for Subfamily Level Classification of GPCRs Using Motif Distillation and Distinguishing Power Evaluation. - Ahmet Sinan Yavuz; Bugra Ozer; Osman Ugur Sezerman (PRIB, 2012)

Testing robustness of relative complexity measure method constructing robust phylogenetic trees for Galanthus L. Using the relative complexity measure. - Yasin Bakis; Hasan H. Otu; Nivart Taçi; Cem Meydan; Nee Bilgin; Sirri Yüzbaiolu; Osman Ugur Sezerman (BMC Bioinform., 2013)

Prediction of peptides binding to MHC class I and II alleles by temporal motif mining. - Cem Meydan; Hasan H. Otu; Osman Ugur Sezerman (BMC Bioinform., 2013)

PANOGA: a web server for identification of SNP-targeted pathways from genome-wide association study data. - Burcu Bakir-Gungor; Ece Egemen; Osman Ugur Sezerman (Bioinform., 2014)

Prediction of neddylation sites from protein sequences and sequence-derived properties. - Ahmet Sinan Yavuz; Namik Berk Sözer; Osman Ugur Sezerman (BMC Bioinform., 2015)

ZK DrugResist 2.0: A TextMiner to extract semantic relations of drug resistance from PubMed. - Zoya Khalid; Osman Ugur Sezerman (J. Biomed. Informatics, 2017)

Thermostability of the PYL-PP2C Heterodimer Is Dependent on Magnesium: In Silico Insights into the Link between Heat Stress Response and Magnesium Deficiency in Plants. - Emel Timuçin; Osman Ugur Sezerman (J. Chem. Inf. Model., 2018)

Prediction of HIV Drug Resistance by Combining Sequence and Structural Properties. - Zoya Khalid; Osman Ugur Sezerman (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)

driveR: a novel method for prioritizing cancer driver genes using somatic genomics data. - Ege Ülgen; Osman Ugur Sezerman (BMC Bioinform., 2021)

A framework for validating AI in precision medicine: considerations from the European ITFoC consortium. - Rosy Tsopra; Xosé M. Fernández; Claudio Luchinat; Lilia Alberghina; Hans Lehrach; Marco Vanoni; Felix Dreher 002; Osman Ugur Sezerman; Marc Cuggia; Marie de Tayrac; Edvins Miklasevics; Lucian Mihai Itu; et al. (BMC Medical Informatics Decis. Mak., 2021)

CogNet: classification of gene expression data based on ranked active-subnetwork-oriented KEGG pathway enrichment analysis. - Malik Yousef; Ege Ülgen; Osman Ugur Sezerman (PeerJ Comput. Sci., 2021)

PANACEA: network-based methods for pharmacotherapy prioritization in personalized oncology. - Ege Ülgen; Ozan Ozisik; Osman Ugur Sezerman (Bioinform., 2023)

Privacy-Preserving Machine Learning (PPML) Inference for Clinically Actionable Models. - Baris Balaban; Seyma Selcan Magara; Caglar Yilgor; Altug Yucekul; Ibrahim Obeid; Javier Pizones; Frank Kleinstueck; Francisco Javier Sanchez Perez-Grueso; Ferran Pellisé; Ahmet Alanay; Erkay Savas; Çetin Bagci; et al. (IEEE Access, 2025)