Distinct Clusters of Patient reported outcome (PRO) trajectories among oncology patients receiving chemotherapy. - Selen Bozkurt; Amee D. Azad; Melih Yilmaz; James D. Brooks; Douglas W. Blayney; Tina Hernandez-Boussard (AMIA, 2020)

New Results in End-to-end Image and Video Compression by Deep Learning. - Gökberk Özsoy; Melih Yilmaz; Ogün Kirmemis; A. Murat Tekalp (SIU, 2020)

De novo mass spectrometry peptide sequencing with a transformer model. - Melih Yilmaz; William Fondrie; Wout Bittremieux; Sewoong Oh; William S. Noble (ICML, 2022)

A learned score function improves the power of mass spectrometry database search. - Varun Ananth; Justin Sanders; Melih Yilmaz; Bo Wen; Sewoong Oh; William Stafford Noble (Bioinform., 2024)

Foundation model for mass spectrometry proteomics. - Justin Sanders; Melih Yilmaz; Jacob H. Russell; Wout Bittremieux; William Fondrie; Nicholas M. Riley; Sewoong Oh; William Stafford Noble (CoRR, 2025)