THEMATICS is Effective for Active Site Prediction in Comparative Model Structures. - Ihsan A. Shehadi; Alper Uzun; Leonel F. Murga; Valentin A. Ilyin; Mary Jo Ondrechen (APBC, 2004)

Active Site Prediction for Comparative Model Structures with Thematics. - Ihsan A. Shehadi; Alexej Abyzov; Alper Uzun; Ying Wei; Leonel F. Murga; Valentin A. Ilyin; Mary Jo Ondrechen (J. Bioinform. Comput. Biol., 2005)

Structure SNP (StSNP): a web server for mapping and modeling nsSNPs on protein structures with linkage to metabolic pathways. - Alper Uzun; Chesley M. Leslin; Alexej Abyzov; Valentin A. Ilyin (Nucleic Acids Res., 2007)

An AP Endonuclease 1-DNA Polymerase β Complex: Theoretical Prediction of Interacting Surfaces. - Alexej Abyzov; Alper Uzun; Phyllis R. Strauss; Valentin A. Ilyin (PLoS Comput. Biol., 2008)

dbPTB: a database for preterm birth. - Alper Uzun; Alyse Laliberte; Jeremy Parker; Caroline Andrew; Emily Winterrowd; Surendra Sharma; Sorin Istrail; James Padbury (Database J. Biol. Databases Curation, 2012)

dbPEC: a comprehensive literature-based database for preeclampsia related genes and phenotypes. - Alper Uzun; Elizabeth W. Triche; Jessica Schuster; Andrew Thomas DeWan; James Padbury (Database J. Biol. Databases Curation, 2016)

Machine learning approach to literature mining for the genetics of complex diseases. - Jessica Schuster; Michael Superdock; Anthony Agudelo; Paul Stey; James Padbury; Indra Neil Sarkar; Alper Uzun (Database J. Biol. Databases Curation, 2019)

Enabling the clinical application of artificial intelligence in genomics: a perspective of the AMIA Genomics and Translational Bioinformatics Workgroup. - Nephi A. Walton; Radhakrishnan Nagarajan; Chen Wang 001; Murat Sincan; Robert R. Freimuth; David B. Everman; Derek C. Walton; Scott P. McGrath; Dominick J. Lemas; Panayiotis V. Benos; Alexander V. Alekseyenko; Qianqian Song; et al. (J. Am. Medical Informatics Assoc., 2024)

Variant graph craft (VGC): a comprehensive tool for analyzing genetic variation and identifying disease-causing variants. - Jennifer Li; Andy Yang; Benedito A. Carneiro; Ece D. Gamsiz Uzun; Lauren Massingham; Alper Uzun (BMC Bioinform., 2024)