A. Ercüment Çiçek, Ph.D.

Associate Professor, Bilkent University

SFARI Investigator Website

A. Ercüment Çiçek earned his B.S. (2007) and M.S. (2009) degrees in computer science and Engineering from Sabanci University. He received his Ph.D. degree in computer science from Case Western Reserve University in 2013. During his Ph.D., he visited Cold Spring Harbor Laboratory to work on gene discovery algorithms for autism spectrum disorder. After graduation, he worked as a Lane Fellow in Computational Biology at Carnegie Mellon University until 2015.

He is currently associate professor in the Computer Engineering Department at Bilkent University and is an adjunct faculty member in the Computational Biology Department at Carnegie Mellon University. His research is mainly focused on designing machine-learning algorithms for the analysis of large-scale biological data, with a special interest in neuroinformatics and autism spectrum disorder.

Funded Projects

Speeding up autism gene discovery via deep multitask learning of data from cohorts of comorbid neurodevelopmental and neuropsychiatric disorders

Awarded: 2019
Award Type: Pilot

Spatio-temporal gene discovery for autism spectrum disorder

Awarded: 2016
Award Type: Explorer

SFARI Funded Publications

DeepND: Deep multitask learning of gene risk for comorbid neurodevelopmental disorders. Beyreli I., Karakahya O., Çiçek A. E.

De novo missense variants disrupting protein-protein interactions affect risk for autism through gene co-expression and protein networks in neuronal cell types. Chen S., Wang J., Çiçek A. E., Roeder K., Yu H., Devlin B.

Whole-genome and RNA sequencing reveal variation and transcriptomic coordination in the developing human prefrontal cortex. Werling D., Pochareddy S., Choi J., An J.Y., Sheppard B., Peng M., Li Z., Dastmalchi C., Santpere G., Sousa A. M. M., Tebbenkamp A.T.N., Kaur N., Gulden F.O., Breen M.S., Liang L., Gilson M.C., Zhao X., Dong S., Klei L., Çiçek A. E., Buxbaum J., Adle-Biassette H., Thomas J.L., Aldinger K.A., O'Day D.R., Glass I.A., Zaitlen N.A., Talkowski M., Roeder K., State M., Devlin B., Sanders S., Sestan N.