arXiv Machine Learning

Scalable Pairwise Kernel Learning with Stochastic Vec Trick

arXiv:2606. 16979v1 Announce Type: new Abstract: Pairwise learning is a specialized form of supervised learning that focuses on predicting outcomes for pairs of objects.

arXiv Machine Learning
Jun 10

Flexible Kernels for Protein Property Prediction

arXiv:2606. 11057v1 Announce Type: new Abstract: Despite its importance to applications in protein design, predicting protein properties like binding affinity and thermostability from sparse experimental data remains a significant challenge.

By Martin Jankowiak, Yerdos Ordabayev, Rudraksh Tuwani, Henry N. Ward, Hunter Nisonoff, James M. McFarland, Gevorg Grigoryan
arXiv Machine Learning
Jul 14

$\mathtt{Q^2SAR}$: overcoming classical bottlenecks in drug discovery via quantum multiple kernel learning

arXiv:2607. 11701v1 Announce Type: cross Abstract: Quantitative Structure-Activity Relationship ($\mathtt{QSAR}$) modeling is a foundational computational methodology in early-stage drug discovery, heavily relied upon for predicting compound toxicity, bioavailability, and therapeutic potential.

By Mariano Caruso, Daniel Ruiz, Alejandro Giraldo, Guido Bellomo
Hugging Face Trending Papers
Jul 13

Advancing Optimal Subset Oracle via Learning Relaxation of Neural Set Functions

Learning neural set functions is pivotal to a wide range of important applications, including compound selection in AI-driven drug discovery and product recommendation. Recent work has introduced optimal subset oracles to implicitly learn set functions under practical weakly supervised settings, where model parameters are optimized through mean-field variational inference.

arXiv Machine Learning
Jun 26

Target-Aware Bandit Allocation for Scalable Surrogate Optimization in Chemical Space

arXiv:2606. 26657v1 Announce Type: new Abstract: Identifying high-utility candidates from massive discrete spaces under expensive evaluations is a recurring challenge across the sciences, with structure-based drug discovery as a prominent example.

By Mohammad Haddadnia, Yuvan Chali, Abhilash Jayaraj, Constance Kraay, Joana Reis, Felix Strieth-Kalthoff, Haribabu Arthanari
arXiv Machine Learning
Jul 7

Batch effects can impair federated learning in multi-center omics studies

arXiv:2412. 05894v2 Announce Type: replace-cross Abstract: Federated learning (FL) enables collaborative analysis of biomedical data without exchanging sensitive patient-level information, but its performance in multi-center studies may be compromised by batch effects which can obscure biological signals.

By Yuliya Burankova, Julian Klemm, Jens J. G. Lohmann, Anne Hartebrodt, Ahmad Taheri, Niklas Probul, Jan Baumbach, Olga Zolotareva
arXiv Machine Learning
Jun 25

Why Pool When You Can Flow? Active Learning with GFlowNets

arXiv:2509. 00704v2 Announce Type: replace Abstract: The scalability of pool-based active learning is limited by the computational cost of evaluating large unlabeled datasets, a challenge that is particularly acute in virtual screening for drug discovery.

By Renfei Zhang, Mohit Pandey, Artem Cherkasov, Martin Ester