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cs.LGphysics.chem-phphysics.optics Jihwan Kim, Jaeseong Heo, Yujin Kim et al. · Oct 22, 2026

Standard deep learning for spectroscopy treats spectra as fixed-grid intensity vectors, which makes models brittle when sampling grids, spectral ranges, or instruments change. This paper proposes to supply each spectral point as a pair of intensity and physical wavenumber, computing Transformer positional encodings directly from the wavenumber coordinate rather than the array index. Evaluated on in-house bacterial Raman spectra and a public 30-isolate benchmark, the approach improves robustness under partial spectral observation and on sampling grids never seen during training.

Machine-learning models for spectroscopy usually treat a spectrum as a fixed-grid intensity vector, leaving the physical coordinate implicit in the array index. Such models are tied to a single sampling grid, spectral range and resolution, which limits their use when measurement conditions change. Here we represent each spectral point as a pair of intensity and wavenumber and compute Transformer positional encodings from the wavenumber itself. On Raman spectra of three bacterial species and their synthetic mixtures, this representation remained robust to noise, sparser sampling and partial spectral coverage across convolutional, residual and Transformer networks. In controlled comparisons, wavenumber-based encoding outperformed index-based and learned encodings under partial observation and retained its performance on sampling grids never seen during training, where index-based encoding degraded. These findings were reproduced on a public 30-isolate bacterial benchmark. Explicit physical coordinates offer a simple route to robust spectral analysis under variable measurement conditions.
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cond-mat.mtrl-scics.LGphysics.chem-ph Hongrui Sheng, Shutian Liang, Reid A. Coyle et al. · Oct 14, 2026

ActMOF addresses the challenge of optimizing metal-organic framework (MOF) syntheses when experimental data are sparse and outcomes noisy, by introducing an experimentally grounded benchmark for comparing active-learning policies. Starting from only 95 measured microwave syntheses of an aluminum-carboxylate MOF, the authors emulate a landscape of over six million encoded conditions and evaluate 39 policies—Gaussian processes, tree ensembles, and large language models—before transferring the best strategy to six wet-lab syntheses. The demonstration that all six campaigns yielded crystalline products within a 12-experiment budget makes the work relevant as both a reproducible testbed and a proof of concept for transferable, AI-guided reticular chemistry.

Reticular chemistry allows metal-organic frameworks (MOFs) to be designed from their building units, yet their synthesis remains constrained by sparse experimental data, noisy crystallization outcomes, and the absence of benchmarks for comparing active-learning strategies. While data-driven approaches such as Bayesian optimization (BO) can improve synthesis success rates, selecting appropriate optimizers beforehand for mapping MOF crystallization landscapes remains largely empirical. Here we present ActMOF, an experiment-grounded benchmark for comparing search strategies in aluminum-carboxylate MOF synthesis. ActMOF is emulated from experimentally measured microwave syntheses with each encoded condition assigned a crystallinity index calculated based on diffraction peak intensity and full width at half-maximum. By benchmarking policies guided by Gaussian processes (GP), tree ensembles and large language models (LLM), ActMOF placed the GP family among the leading policies for active learning in sparse synthesis landscapes. It then demonstrated transferability by guiding the microwave synthesis of six reticularly related aluminum MOFs. All six campaigns gave crystalline products within a fixed budget of 12 experiments each, and established a reusable testbed for AI-driven MOF synthesis.
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cs.LGphysics.app-phphysics.chem-ph Laura Zichi, Gil Harari, Chuin Wei Tan et al. · Oct 1, 2026

Equivariant machine learning interatomic potentials are held back by costly tensor product operations that dominate inference at scale. BranchIP addresses this by introducing lightweight, learned routers inside a single model that adaptively terminate tensor product refinement for individual features, trained with a novel distillation loss. On two realistic reactive systems—CO/Pt catalysis and CsH2PO4 proton conductors—it delivers up to 2.4× inference speedup and 2.6× memory reduction while preserving exact energy conservation and offering chemically interpretable routing patterns.

Equivariant machine learning interatomic potentials (MLIPs) have revolutionized atomistic modeling, but accurate treatment of complex materials and molecular systems demands expensive models. This limits simulation length- and time-scales, with tensor products a key computational bottleneck. The recent emergence of foundation-scale MLIPs further exacerbates this challenge. We present Branch Interatomic Potential (BranchIP), a single-model framework for learned adaptive tensor product computation, trained with a novel distillation loss. In our experiments on two systems of physical interest, a heterogeneous catalysis system and a proton-conducting solid acid electrolyte, BranchIP accelerates MLIPs across model sizes by up to $2.4\times$ while reducing memory usage by up to $2.6\times$. This is achieved while maintaining physical fidelity. Furthermore, the learned adaptive computation provides model interpretability by revealing which interactions demand deeper computation and showing how computational depth relates to chemical complexity and dynamics.
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physics.chem-phcond-mat.softcs.LG Weilong Chen, Nuno Costa, Julija Zavadlav · Oct 1, 2026

SupraTITO tackles the costly problem of predicting how peptide sequences drive supramolecular self-assembly. It learns transferable implicit transfer operators conditioned on sequence, topology, and periodic boundary geometry to generatively propagate many-molecule configurations over long physical lags. Evaluated on 400 coarse-grained dipeptide systems, it generalizes to held-out sequences and unseen concentrations while preserving molecular integrity through recursive rollouts. The work extends generative molecular dynamics from single-molecule conformations to collective periodic assembly.

Peptide sequence governs both the structures formed through supramolecular assembly and the dynamics by which they emerge, but predicting either requires resolving slow collective processes among many interacting molecules. Molecular dynamics (MD) provides microscopic insight into these processes, yet the long timescales of assembly and the vast peptide sequence space make systematic exploration computationally demanding. We introduce SupraTITO, a transferable generative molecular dynamics (GenMD) framework for supramolecular systems, demonstrated through peptide self-assembly. SupraTITO learns transferable implicit transfer operators (TITO) conditioned on peptide sequence, molecular topology, and periodic geometry, allowing configurations to be propagated over physical intervals much longer than an MD integration step. On a comprehensive dipeptide benchmark, SupraTITO generalizes to held-out sequences and reproduces sequence-dependent structures and dynamics while maintaining molecular integrity over long rollouts. Compared with direct ensemble prediction trained on the same trajectory data, SupraTITO more accurately reproduces assembly structures while also resolving their temporal evolution. The learned dynamics generalize across peptide concentrations, including dilute conditions not represented during training. These results extend transferable GenMD to collective dynamics in periodic supramolecular systems and provide a foundation for modeling related processes beyond peptide assembly.
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cond-mat.mtrl-scicond-mat.mes-hallcs.LG Claudia Islas-Vargas, L. Ricardo Montoya, Carlos A. Vital-Jos\'e et al. · Mar 23, 2026

Sodium-ion batteries need high-capacity anodes with fast ion transport, but hard carbon suffers from structural disorder and slow diffusion. This computational study uses the SpookyNet machine-learning force field with DFT to characterize aminobenzene-functionalized Janus graphene at room temperature. The work identifies a three-stage sodium storage mechanism and predicts a high capacity of ~400 mAh g$^{-1}$ with diffusion coefficients two to three orders of magnitude above hard carbon.

Sodium-ion batteries require anodes that combine high capacity, low operating voltage, fast Na-ion transport, and mechanical stability, which conventional anodes struggle to deliver. Here, we use the SpookyNet machine-learning force field (MLFF) together with all-electron density-functional theory calculations to characterize Na storage in aminobenzene-functionalized Janus graphene (Na$_x$AB) at room-temperature. Simulations across state of charge reveal a three-stage storage mechanism-site-specific adsorption at aminobenzene groups and Na$_n$@AB$_m$ structure formation, followed by interlayer gallery filling-contrasting the multi-stage pore-, graphite-interlayer-, and defect-controlled behavior in hard carbon. This leads to an OCV profile with an extended low-voltage plateau of 0.15 V vs. Na/Na$^{+}$, an estimated gravimetric capacity of $\sim$400 mAh g$^{-1}$, negligible volume change, and Na diffusivities of $\sim10^{-6}$ cm$^{2}$ s$^{-1}$, two to three orders of magnitude higher than in hard carbon. Our results establish Janus aminobenzene-graphene as a promising, structurally defined high-capacity Na-ion anode and illustrate the power of MLFF-based simulations for characterizing electrode materials.
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physics.chem-phcs.AI Junyi An, Xinyu Lu, Yun-Fei Shi et al. · Mar 23, 2026

Suiren-1.0 introduces a family of molecular foundation models designed to bridge the gap between microscopic 3D quantum-mechanical conformations and macroscopic 2D molecular property prediction. The framework comprises Suiren-Base (a 1.8B-parameter SE(3)-equivariant GNN pre-trained on 70M DFT samples), Suiren-Dimer (continued pre-training on intermolecular interactions), and Suiren-ConfAvg (a lightweight 2D model distilled via a novel Conformation Compression Distillation diffusion framework). This work matters because it attempts to unify quantum-accurate representations with practical cheminformatics workflows where only SMILES or graph inputs are available.

We introduce Suiren-1.0, a family of molecular foundation models for the accurate modeling of diverse organic systems. Suiren-1.0 comprising three specialized variants (Suiren-Base, Suiren-Dimer, and Suiren-ConfAvg) is integrated within an algorithmic framework that bridges the gap between 3D conformational geometry and 2D statistical ensemble spaces. We first pre-train Suiren-Base (1.8B parameters) on a 70M-sample Density Functional Theory dataset using spatial self-supervision and SE(3)-equivariant architectures, achieving robust performance in quantum property prediction. Suiren-Dimer extends this capability through continued pre-training on 13.5M intermolecular interaction samples. To enable efficient downstream application, we propose Conformation Compression Distillation (CCD), a diffusion-based framework that distills complex 3D structural representations into 2D conformation-averaged representations. This yields the lightweight Suiren-ConfAvg, which generates high-fidelity representations from SMILES or molecular graphs. Our extensive evaluations demonstrate that Suiren-1.0 establishes state-of-the-art results across a range of tasks. All models and benchmarks are open-sourced.