Fast CPU-based DNA exact sequence aligner. - Aryan Arbabi; Milad Gholami; Mojtaba Varmazyar; Shervin Daneshpajouh (MEMOCODE, 2012)

Probabilistic method for detecting copy number variation in a fetal genome using maternal plasma sequencing. - Ladislav Rampásek; Aryan Arbabi; Michael Brudno (Bioinform., 2014)

ARYANA: Aligning Reads by Yet Another Approach. - Milad Gholami; Aryan Arbabi; Ali Sharifi-Zarchi; Hamidreza Chitsaz; Mehdi Sadeghi (BMC Bioinform., 2014)

Cell-free DNA fragment-size distribution analysis for non-invasive prenatal CNV prediction. - Aryan Arbabi; Ladislav Rampásek; Michael Brudno (Bioinform., 2016)

β-VAEs can retain label information even at high compression. - Emily Fertig; Aryan Arbabi; Alexander A. Alemi (CoRR, 2018)

Training without training data: Improving the generalizability of automated medical abbreviation disambiguation. - Marta Skreta; Aryan Arbabi; Jixuan Wang; Michael Brudno (ML4H@NeurIPS, 2019)

Identifying Clinical Terms in Free-Text Notes Using Ontology-Guided Machine Learning. - Aryan Arbabi; David R. Adams; Sanja Fidler; Michael Brudno (RECOMB, 2019)

R2D2: Relational Text Decoding with Transformers. - Aryan Arbabi; Mingqiu Wang; Laurent El Shafey; Nan Du 002; Izhak Shafran (CoRR, 2021)

PhenoPad: Building AI enabled note-taking interfaces for patient encounters. - Jixuan Wang; Jingbo Yang; Haochi Zhang; Helen Lu; Marta Skreta; Mia Husic; Aryan Arbabi; Nicole Sultanum; Michael Brudno (npj Digit. Medicine, 2022)

Machine Learning Methods for Acceleration of Rare Genetic Disease Diagnosis - Aryan Arbabi (2022)