Intrusion Detection via Artificial Immune System: a Performance-based Approach. - Andrea Visconti; Nicoló Fusi; Hooman Tahayori (BICC, 2008)

Joint Modelling of Confounding Factors and Prominent Genetic Regulators Provides Increased Accuracy in Genetical Genomics Studies. - Nicoló Fusi; Oliver Stegle; Neil D. Lawrence (PLoS Comput. Biol., 2012)

Gaussian Processes for Big Data. - James Hensman; Nicoló Fusi; Neil D. Lawrence (UAI, 2013)

Detecting regulatory gene-environment interactions with unmeasured environmental factors. - Nicoló Fusi; Christoph Lippert; Karsten M. Borgwardt; Neil D. Lawrence; Oliver Stegle (Bioinform., 2013)

Probabilistic latent variable models in statistical genomics. - Nicoló Fusi (2015)

Flexible Modelling of Genetic Effects on Function-Valued Traits. - Nicoló Fusi; Jennifer Listgarten (RECOMB, 2016)

Flexible Modeling of Genetic Effects on Function-Valued Traits. - Nicoló Fusi; Jennifer Listgarten (J. Comput. Biol., 2017)

Gaussian Process Prior Variational Autoencoders. - Francesco Paolo Casale; Adrian V. Dalca; Luca Saglietti; Jennifer Listgarten; Nicoló Fusi (NeurIPS, 2018)

Probabilistic Matrix Factorization for Automated Machine Learning. - Nicoló Fusi; Rishit Sheth; Melih Elibol (NeurIPS, 2018)

Model Compression with Generative Adversarial Networks. - Ruishan Liu; Nicoló Fusi; Lester Mackey (CoRR, 2018)

Probabilistic Neural Architecture Search. - Francesco Paolo Casale; Jonathan Gordon 003; Nicoló Fusi (CoRR, 2019)

Feature Gradients: Scalable Feature Selection via Discrete Relaxation. - Rishit Sheth; Nicoló Fusi (CoRR, 2019)

Differentiable Feature Selection by Discrete Relaxation. - Rishit Sheth; Nicoló Fusi (AISTATS, 2020)

Geometric Dataset Distances via Optimal Transport. - David Alvarez-Melis; Nicolò Fusi (NeurIPS, 2020)

Weighted Meta-Learning. - Diana Cai; Rishit Sheth; Lester Mackey; Nicoló Fusi (CoRR, 2020)

Model-specific Data Subsampling with Influence Functions. - Anant Raj; Cameron Musco; Lester Mackey; Nicoló Fusi (CoRR, 2020)

Gradient Flows in Dataset Space. - David Alvarez-Melis; Nicolò Fusi (CoRR, 2020)

Initialization and Regularization of Factorized Neural Layers. - Mikhail Khodak; Neil A. Tenenholtz; Lester Mackey; Nicolò Fusi (ICLR, 2021)

Dataset Dynamics via Gradient Flows in Probability Space. - David Alvarez-Melis; Nicolò Fusi (ICML, 2021)

HANT: Hardware-Aware Network Transformation. - Pavlo Molchanov 001; Jimmy Hall; Hongxu Yin; Jan Kautz; Nicolò Fusi; Arash Vahdat (CoRR, 2021)

On Hard Episodes in Meta-Learning. - Samyadeep Basu; Amr Sharaf; Nicolò Fusi; Soheil Feizi (CoRR, 2021)

LANA: Latency Aware Network Acceleration. - Pavlo Molchanov 001; Jimmy Hall; Hongxu Yin; Jan Kautz; Nicolò Fusi; Arash Vahdat (ECCV (12), 2022)

Rapid Model Architecture Adaption for Meta-Learning. - Yiren Zhao; Xitong Gao; Ilia Shumailov; Nicolò Fusi; Robert D. Mullins (NeurIPS, 2022)

Interpretable Distribution Shift Detection using Optimal Transport. - Neha Hulkund; Nicolò Fusi; Jennifer Wortman Vaughan; David Alvarez-Melis (CoRR, 2022)

Budget-Constrained Bounds for Mini-Batch Estimation of Optimal Transport. - David Alvarez-Melis; Nicolò Fusi; Lester Mackey; Tal Wagner (CoRR, 2022)

Bayesian Optimization Over Iterative Learners with Structured Responses: A Budget-aware Planning Approach. - Syrine Belakaria; Janardhan Rao Doppa; Nicolò Fusi; Rishit Sheth (AISTATS, 2023)

Considerations for data acquisition and modeling strategies: Mitosis detection in computational pathology. - Zongliang Ji; Philip Rosenfield; Christina Eng; Sarah Bettigole; Danielle C. Gibson; Hamid Masoudi; Matthew G. Hanna; Nicolò Fusi; Kristen A. Severson 001 (MIDL, 2023)

Can Generalist Foundation Models Outcompete Special-Purpose Tuning? Case Study in Medicine. - Harsha Nori; Yin Tat Lee; Sheng Zhang 012; Dean Carignan; Richard Edgar; Nicolò Fusi; Nicholas King; Jonathan Larson; Yuanzhi Li; Weishung Liu; Renqian Luo; Scott Mayer McKinney; et al. (CoRR, 2023)

Tag-LLM: Repurposing General-Purpose LLMs for Specialized Domains. - Junhong Shen; Neil A. Tenenholtz; James Brian Hall; David Alvarez-Melis; Nicolò Fusi (ICML, 2024)

PRISM: A Multi-Modal Generative Foundation Model for Slide-Level Histopathology. - George Shaikovski; Adam Casson; Kristen Severson 001; Eric Zimmermann; Yi Kan Wang; Jeremy D. Kunz; Juan Retamero; Gerard Oakley; David S. Klimstra; Christopher Kanan; Matthew G. Hanna; Michal Zelechowski; et al. (CoRR, 2024)

Virchow2: Scaling Self-Supervised Mixed Magnification Models in Pathology. - Eric Zimmermann; Eugene Vorontsov; Julian Viret; Adam Casson; Michal Zelechowski; George Shaikovski; Neil A. Tenenholtz; James Brian Hall; David S. Klimstra; Razik Yousfi; Thomas J. Fuchs; Nicoló Fusi; et al. (CoRR, 2024)

Adapting Language Models via Token Translation. - Zhili Feng; Tanya Marwah; Nicolò Fusi; David Alvarez-Melis; Lester Mackey (CoRR, 2024)

IGDA: Interactive Graph Discovery through Large Language Model Agents. - Alex Havrilla; David Alvarez-Melis; Nicolò Fusi (CoRR, 2025)

PRISM2: Unlocking Multi-Modal General Pathology AI with Clinical Dialogue. - George Shaikovski; Eugene Vorontsov; Adam Casson; Julian Viret; Eric Zimmermann; Neil A. Tenenholtz; Yi Kan Wang; Jan Bernhard; Ran A. Godrich; Juan Retamero; Razik Yousfi; Nicolò Fusi; et al. (CoRR, 2025)