Sparse Binary Relation Representations for Genome Graph Annotation. - Mikhail Karasikov; Harun Mustafa; Amir Joudaki; Sara Javadzadeh-No; Gunnar Rätsch; André Kahles (J. Comput. Biol., 2020)

DeepViFi: detecting oncoviral infections in cancer genomes using transformers. - Utkrisht Rajkumar; Sara Javadzadeh; Mihir Bafna; Dongxia Wu; Rose Yu; Jingbo Shang; Vineet Bafna (BCB, 2022)

Analysis of targeted and whole genome sequencing of PacBio HiFi reads for a comprehensive genotyping of gene-proximal and phenotype-associated Variable Number Tandem Repeats. - Sara Javadzadeh; Aaron Adamson; Jonghun Park; Se-Young Jo; Yuan-Chun Ding; Mehrdad Bakhtiari; Vikas Bansal 001; Susan L. Neuhausen; Vineet Bafna (PLoS Comput. Biol., 2025)