arXiv Machine Learning

RamanBench: A Large-Scale Benchmark for Machine Learning on Raman Spectroscopy

arXiv Machine Learning
Jun 15

Machine Learning for Biomedical Raman Spectroscopy: From Spectral Acquisition to Clinical Translation

arXiv:2606. 14169v1 Announce Type: new Abstract: Raman spectroscopy provides label-free, chemically specific characterization of biological systems and has become an important tool for cancer diagnosis, molecular subtyping, microbiological identification, and intraoperative decision support.

By Bogdan Oancea, Ana Maria Seciu-Grama, Nicoleta Siminea, Laura Mihaela Stefan, Alice Stoica, Joel Sjoberg, Marian Necula, Ana-Maria Prelipcean, Corneliu Ovidiu Vrancianu, Eduard Milea, Andrei P\u{a}un, Ion Petre, Mihaela P\u{a}un
arXiv Machine Learning
Sep 18

Sharpness-Aware Minimization (SAM) Improves Classification Accuracy of Bacterial Raman Spectral Data Enabling Portable Diagnostics

Sharpness-Aware Minimization (SAM) is applied to improve the generalization of machine learning models for classifying bacterial Raman spectra, a technique that could enable rapid, portable diagnostics for antimicrobial resistance. The study shows that SAM can increase classification accuracy by up to 10.5% on a single data split and by an average of 2.7% across multiple splits compared to the traditional Adam optimizer. These gains demonstrate SAM’s potential to enhance the clinical utility of AI-powered Raman spectroscopy tools.

By Kaitlin Zareno, Jarett Dewbury, Siamak K. Sorooshyari, Hossein Mobahi, Loza F. Tadesse
arXiv AI
Sep 17

BOOM: Benchmarking Out-Of-distribution Molecular Property Predictions of Machine Learning Models

BOOM is a new benchmark for evaluating out‑of‑distribution (OOD) molecular property predictions in machine learning. It provides chemically‑informed tests across common property prediction tasks and assesses over 150 model‑task combinations. The study shows that current models, including chemical foundation models, struggle to generalize OOD, with the best model still exhibiting three times higher error than in‑distribution predictions.

By Evan R. Antoniuk, Shehtab Zaman, Tal Ben-Nun, Peggy Li, James Diffenderfer, Busra Sahin, Obadiah Smolenski, Everett Grethel, Tim Hsu, Anna M. Hiszpanski, Kenneth Chiu, Bhavya Kailkhura, Brian Van Essen
arXiv Machine Learning
Jul 1

ElemeNet: Multiscale Molecular Machine Learning with Uncertainty Quantification Across the Periodic Table

arXiv:2606. 30961v1 Announce Type: cross Abstract: Advances in deep learning architectures and representations have enabled ML-driven chemical property prediction, but state-of-the-art (SOTA) models have remained largely confined to independent codebases and lack support for diverse chemical species.

By Jacob W. Toney, Samir Darouich, Yiran Wang, Aaron G. Garrison, Johannes K\"astner, Heather J. Kulik
arXiv AI
Sep 10

TabBench-Bio: A Living Benchmark for Machine Learning on High-Dimensional Biomedical Tables

TabBench-Bio is a living, interactive benchmark that evaluates machine learning models on 43 high‑dimensional biomedical tables, covering multiple domains. Using a shared cross‑validation protocol, the benchmark compares classical estimators, neural networks, and tabular foundation models across 28 feature‑by‑sample operating points, with RealTabPFN v2.5 achieving the highest performance at the reference cell of 10,000 features and 100 training samples. The benchmark provides reproducible results, fold‑level predictions, and invites community contributions to expand its dataset collection.

By Jules Kreuer, Sofiane Ouaari, Julia Hellmig, Julius Braitinger, Nico Pfeifer
arXiv AI
Jun 26

Multipath Adaptive Gated Bottleneck Latent ODE with Raman Data Fusion for Cell Culture Process Forecasting

arXiv:2606. 26520v1 Announce Type: cross Abstract: Mammalian cell-culture processes underpin the manufacture of many biopharmaceuticals, yet keeping a run on track is hard: critical process parameters drift over days, and an off-specification trend is often confirmed too late to intervene.

By Johnny Peng, Thanh Tung Khuat, Ellen Otte, Katarzyna Musial, Bogdan Gabrys