Sample Size and Reproducibility of Gene Set Analysis. - Farhad Maleki; Katie L. Ovens; Ian McQuillan; Anthony J. Kusalik (BIBM, 2018)

Gene Set Databases: A Fountain of Knowledge or a Siren Call? - Farhad Maleki; Katie L. Ovens; Ian McQuillan; Elham Rezaei; Alan M. Rosenberg; Anthony J. Kusalik (BCB, 2019)

Method Choice in Gene Set Analysis Has Important Consequences for Analysis Outcome. - Farhad Maleki; Katie L. Ovens; Elham Rezaei; Alan M. Rosenberg; Anthony J. Kusalik (BIOINFORMATICS, 2019)

Measuring consistency among gene set analysis methods: A systematic study. - Farhad Maleki; Katie L. Ovens; Daniel J. Hogan; Elham Rezaei; Alan M. Rosenberg; Anthony J. Kusalik (J. Bioinform. Comput. Biol., 2019)

The impact of sample size and tissue type on the reproducibility of gene co-expression networks. - Katie L. Ovens; B. Frank Eames; Ian McQuillan (BCB, 2020)

A Deep Learning-Based Pipeline for Celiac Disease Diagnosis Using Histopathological Images. - Farhad Maleki; Kevin Cote; Keyhan Najafian; Katie L. Ovens; Yan Miao; Rita Zakarian; Caroline Reinhold; Reza Forghani; Peter Savadjiev; Zu-hua Gao (CAIP (1), 2021)

Juxtapose: a gene-embedding approach for comparing co-expression networks. - Katie L. Ovens; Farhad Maleki; B. Frank Eames; Ian McQuillan (BMC Bioinform., 2021)

Generalizability of Machine Learning Models: Quantitative Evaluation of Three Methodological Pitfalls. - Farhad Maleki; Katie L. Ovens; Rajiv Gupta; Caroline Reinhold; Alan Spatz; Reza Forghani (CoRR, 2022)

Deep Learning-Based Hierarchical Delineation of Kidneys, Tumors, and Cysts in CT Images. - Andrew Heschl; Hosein Beheshtifard; Phuong Thao Nguyen; Tapotosh Ghosh; Katie L. Ovens; Farhad Maleki (KiTS@MICCAI, 2023)

Discovering Knowledge Embedded in Gene Set Databases: A Mathematical Modelling Approach. - Katie L. Ovens; Ebunoluwa Makinde; Samuel Horovatin; Elham Rezaei; Alan M. Rosenberg; Lingling Jin; Ian McQuillan; Anthony J. Kusalik; Farhad Maleki (ICCBB, 2024)

RIDGE: Reproducibility, Integrity, Dependability, Generalizability, and Efficiency Assessment of Medical Image Segmentation Models. - Farhad Maleki; Linda Moy; Reza Forghani; Tapotosh Ghosh; Katie L. Ovens; Steve Langer; Pouria Rouzrokh; Bardia Khosravi; Ali Ganjizadeh; Daniel I. Warren; Roxana Daneshjou; Mana Moassefi; et al. (CoRR, 2024)

Modified CycleGAN for the synthesization of samples for wheat head segmentation. - Jaden Myers; Keyhan Najafian; Farhad Maleki; Katie L. Ovens (CoRR, 2024)

Efficient Wheat Head Segmentation with Minimal Annotation: A Generative Approach. - Jaden Myers; Keyhan Najafian; Farhad Maleki; Katie L. Ovens (J. Imaging, 2024)