Feasibility of 3D Reconstruction of Neural Morphology Using Expansion Microscopy and Barcode-Guided Agglomeration. - Young-Gyu Yoon; Peilun Dai; Jeremy Wohlwend; Jae-Byum Chang; Adam H. Marblestone; Edward S. Boyden III (Frontiers Comput. Neurosci., 2017)

Metric Learning for Dynamic Text Classification. - Jeremy Wohlwend; Ethan R. Elenberg; Sam Altschul; Shawn Henry; Tao Lei 001 (DeepLo@EMNLP-IJCNLP, 2019)

Flambé: A Customizable Framework for Machine Learning Experiments. - Jeremy Wohlwend; Nicholas Matthews; Ivan Itzcovich (ACL (3), 2019)

Building a Production Model for Retrieval-Based Chatbots. - Kyle Swanson; Lili Yu; Christopher Fox; Jeremy Wohlwend; Tao Lei 001 (CoRR, 2019)

Autoregressive Knowledge Distillation through Imitation Learning. - Alexander Lin; Jeremy Wohlwend; Howard Chen 003; Tao Lei 001 (EMNLP (1), 2020)

Structured Pruning of Large Language Models. - Ziheng Wang; Jeremy Wohlwend; Tao Lei 001 (EMNLP (1), 2020)

ASAPP-ASR: Multistream CNN and Self-Attentive SRU for SOTA Speech Recognition. - Jing Pan; Joshua Shapiro; Jeremy Wohlwend; Kyu Jeong Han; Tao Lei 001; Tao Ma (INTERSPEECH, 2020)

Iterative Refinement Graph Neural Network for Antibody Sequence-Structure Co-design. - Wengong Jin; Jeremy Wohlwend; Regina Barzilay; Tommi S. Jaakkola (ICLR, 2022)

Annotating metabolite mass spectra with domain-inspired chemical formula transformers. - Samuel Goldman; Jeremy Wohlwend; Martin Strazar; Guy Haroush; Ramnik J. Xavier; Connor W. Coley (Nat. Mac. Intell., 2023)

Deep learning enhances the prediction of HLA class I-presented CD8+ T cell epitopes in foreign pathogens. - Jeremy Wohlwend; Anusha Nathan; Nitan Shalon; Charles R. Crain; Rhoda Tano-Menka; Benjamin Goldberg 004; Emma Richards; Gaurav D. Gaiha; Regina Barzilay (Nat. Mac. Intell., 2025)

MiniFold: Simple, Fast, and Accurate Protein Structure Prediction. - Jeremy Wohlwend; Mateo Reveiz; Matt McPartlon; Axel Feldmann; Wengong Jin; Regina Barzilay (Trans. Mach. Learn. Res., 2025)