Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping. - Hongyi Xin; John Greth; John Emmons; Gennady Pekhimenko; Carl Kingsford; Can Alkan; Onur Mutlu (Bioinform., 2015)

Automated Assignment of Backbone NMR Data using Artificial Intelligence. - John Emmons; Steven Johnson; Timothy Urness; Adina Kilpatrick (CoRR, 2015)

Optimal seed solver: optimizing seed selection in read mapping. - Hongyi Xin; Sunny Nahar; Richard L. Zhu; John Emmons; Gennady Pekhimenko; Carl Kingsford; Can Alkan; Onur Mutlu (Bioinform., 2016)

Optimizing Deep CNN-Based Queries over Video Streams at Scale. - Daniel Kang; John Emmons; Firas Abuzaid; Peter Bailis; Matei Zaharia (CoRR, 2017)

NoScope: Optimizing Deep CNN-Based Queries over Video Streams at Scale. - Daniel Kang; John Emmons; Firas Abuzaid; Peter Bailis; Matei Zaharia (Proc. VLDB Endow., 2017)

ROBOTURK: A Crowdsourcing Platform for Robotic Skill Learning through Imitation. - Ajay Mandlekar; Yuke Zhu; Animesh Garg; Jonathan Booher; Max Spero; Albert Tung; Julian Gao; John Emmons; Anchit Gupta; Emre Orbay; Silvio Savarese; Li Fei-Fei 001 (CoRL, 2018)

Salsify: Low-Latency Network Video through Tighter Integration between a Video Codec and a Transport Protocol. - Sadjad Fouladi; John Emmons; Emre Orbay; Catherine Wu; Riad S. Wahby; Keith Winstein (NSDI, 2018)

Cracking open the DNN black-box: Video Analytics with DNNs across the Camera-Cloud Boundary. - John Emmons; Sadjad Fouladi; Ganesh Ananthanarayanan; Shivaram Venkataraman; Silvio Savarese; Keith Winstein (HotEdgeVideo@MobiCom, 2019)

Asynchronous Tool Usage for Real-Time Agents. - Antonio A. Ginart; Naveen Kodali; Jason Lee; Caiming Xiong; Silvio Savarese; John Emmons (CoRR, 2024)

AI Engineering: Lessons from the Frontlines. - John Emmons (J. Comput. Sci. Coll., 2025)

LZ Penalty: An information-theoretic repetition penalty for autoregressive language models. - Antonio A. Ginart; Naveen Kodali; Jason Lee; Caiming Xiong; Silvio Savarese; John Emmons (CoRR, 2025)