PhenoGeneRanker: A Tool for Gene Prioritization Using Complete Multiplex Heterogeneous Networks. - Cagatay Dursun; Naoki Shimoyama; Mary Shimoyama; Michael Schläppi; Serdar Bozdag (BCB, 2019)

NECo: A node embedding algorithm for multiplex heterogeneous networks. - Cagatay Dursun; Jennifer R. Smith; G. Thomas Hayman; Anne E. Kwitek; Serdar Bozdag (BIBM, 2020)

PhenoGeneRanker: Gene and Phenotype Prioritization Using Multiplex Heterogeneous Networks. - Cagatay Dursun; Anne E. Kwitek; Serdar Bozdag (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

GENCODE: reference annotation for the human and mouse genomes in 2023. - Adam Frankish; Silvia Carbonell Sala; Mark Diekhans; Irwin Jungreis; Jane E. Loveland; Jonathan M. Mudge; Cristina Sisu; James C. Wright; Carme Arnan; If Barnes; Abhimanyu Banerjee; Ruth Bennett; et al. (Nucleic Acids Res., 2023)