MCPath: Monte Carlo path generation approach to predict likely allosteric pathways and functional residues. - Cihan Kaya; Andac Armutlulu; Sölen Ekesan; Turkan Haliloglu (Nucleic Acids Res., 2013)

Comparative study of the effectiveness and limitations of current methods for detecting sequence coevolution. - Wenzhi Mao; Cihan Kaya; Anindita Dutta; Amnon Horovitz; Ivet Bahar (Bioinform., 2015)

ProDy 2.0: increased scale and scope after 10 years of protein dynamics modelling with Python. - She Zhang; James Krieger; Yan Zhang; Cihan Kaya; Burak T. Kaynak; Karolina Mikulska-Ruminska; Pemra Doruker; Hongchun Li; Ivet Bahar (Bioinform., 2021)