Deep Learning Tissue Segmentation in Cardiac Histopathology Images. - Jeffrey J. Nirschl; Andrew Janowczyk; Eliot G. Peyster; Renee Frank; Kenneth B. Margulies; Michael D. Feldman; Anant Madabhushi (Deep Learning for Medical Image Analysis, 2017)

Biological data annotation via a human-augmenting AI-based labeling system. - Douwe van der Wal; Iny Jhun; Israa Laklouk; Jeffrey J. Nirschl; Lara Richer; Rebecca Rojansky; Talent Theparee; Joshua Wheeler; Jörg Sander 003; Felix Y. Feng; Osama Mohamad; Silvio Savarese; et al. (npj Digit. Medicine, 2021)

Micro-Bench: A Microscopy Benchmark for Vision-Language Understanding. - Alejandro Lozano; Jeffrey J. Nirschl; James Burgess; Sanket Rajan Gupte; Yuhui Zhang; Alyssa Unell; Serena Yeung (NeurIPS, 2024)

μ-Bench: A Vision-Language Benchmark for Microscopy Understanding. - Alejandro Lozano; Jeffrey J. Nirschl; James Burgess; Sanket Rajan Gupte; Yuhui Zhang; Alyssa Unell; Serena Yeung-Levy (CoRR, 2024)

Revisiting Active Learning in the Era of Vision Foundation Models. - Sanket Rajan Gupte; Josiah Aklilu; Jeffrey J. Nirschl; Serena Yeung-Levy (Trans. Mach. Learn. Res., 2024)

MicroVQA: A Multimodal Reasoning Benchmark for Microscopy-Based Scientific Research. - James Burgess; Jeffrey J. Nirschl; Laura Bravo-Sánchez; Alejandro Lozano; Sanket Rajan Gupte; Jesus G. Galaz-Montoya; Yuhui Zhang; Yuchang Su; Disha Bhowmik; Zachary Coman; Sarina M. Hasan; Alexandra Johannesson; et al. (CVPR, 2025)

BIOMEDICA: An Open Biomedical Image-Caption Archive, Dataset, and Vision-Language Models Derived from Scientific Literature. - Alejandro Lozano; Min Woo Sun; James Burgess; Liangyu Chen 005; Jeffrey J. Nirschl; Jeffrey Gu; Ivan Lopez; Josiah Aklilu; Anita Rau; Austin Wolfgang Katzer; Yuhui Zhang; Collin Chiu; et al. (CVPR, 2025)

CellFlow: Simulating Cellular Morphology Changes via Flow Matching. - Yuhui Zhang; Yuchang Su; Chenyu Wang 003; Tianhong Li; Zoe Wefers; Jeffrey J. Nirschl; James Burgess; Daisy Ding; Alejandro Lozano; Emma Lundberg; Serena Yeung-Levy (CoRR, 2025)

A Large-Scale Vision-Language Dataset Derived from Open Scientific Literature to Advance Biomedical Generalist AI. - Alejandro Lozano; Min Woo Sun; James Burgess; Jeffrey J. Nirschl; Christopher Polzak; Yuhui Zhang; Liangyu Chen 005; Jeffrey Gu; Ivan Lopez; Josiah Aklilu; Anita Rau; Austin Wolfgang Katzer; et al. (CoRR, 2025)