arXiv subjects

Théo Jaffrelot Inizan

Publications and source records attributed to Théo Jaffrelot Inizan.

6 recordsLinked to original sources

arXiv2026

uMOF: A Universal Database, Benchmark, and Machine Learning Interatomic Potentials for Metal-Organic Frameworks

Foundation machine learning interatomic potentials (MLIPs) deliver near-ab-initio accuracy at a fraction of the computational cost, yet their promise for Metal-organic Frameworks (MOFs) remains largely unrealized as large unit cells make first-principles training data expensive to generate, fine-tuned models are scarce, and experimentally grounded benchmarks are scarcer still. We introduce uMOF, a three-part contribution addressing this gap. First, we release the largest and most accurate density functional theory dataset for MOFs to date, computed at the r$^2$SCAN-D4 level of theory across 85524 configurations spanning 19950 unique frameworks and 79 elements, covering empty and gas-loaded structures, geometry optimizations, equations of state, and finite-temperature molecular dynamics. Second, we release a literature-mined benchmark of 3986 verified property values (3146 experimental) extracted from 626 papers by a seven-stage, checkpointed multi-pass large language model pipeline, linked to more than 650 crystallographic information files. Third, we release two universal MLIPs for MOFs, uMOF-MH and uMOF-POLAR, fine-tuned from two architecturally distinct MACE foundation models on the uMOF dataset. On near-equilibrium, ``Tier-1'' properties (bulk modulus, phonon-derived heat capacity) the uMOF models perform comparably to existing foundation and fine-tuned baselines. On harder, dynamics-sensitive properties like gas adsorption enthalpies via Widom insertion and adsorption isotherms, the uMOF models outperform every baseline we test, including MOF-specialized gas-capture models trained on datasets up to three orders of magnitude larger, cutting error by more than 80% to within experimental uncertainty. We trace this advantage to the physical diversity of the training data and to level of theory where a small (1.7%) fraction of MD simulations is decisive for MLIP stability.

cond-mat.mtrl-sci↗

arXiv2026

Data-driven Design of Metal-Organic Frameworks with Tunable Negative Thermal Expansion

Materials with negative thermal expansion (NTE) are essential for applications requiring precise control of thermal expansion. Owing to their exceptional chemical tunability, flexible architectures, and low-energy lattice vibrations, metal-organic frameworks (MOFs) represent a rich platform for exploring NTE. However, uncovering the structural motifs that govern NTE across the enormous MOF design space remains experimentally challenging, and large-scale first-principles phonon calculations are computationally prohibitive. Here, we comprehensively evaluate the factors influencing NTE in MOFs by utilizing a high-throughput workflow based on MACE-MP-MOF0, a machine learning interatomic potential fine-tuned for MOFs with near-ab initio accuracy, to construct PhononMOFdb, a database of phonons, inelastic neutron scattering spectra, bulk moduli, and heat capacities for over 12,000 MOFs. High-throughput screening of this database reveals that highly porous cubic topology frameworks with heavier, lower-valent metal nodes favor strong NTE, while linker functionalization provides a practical handle for tuning NTE magnitude and sign without compromising mechanical stability. Experimental validation via high-resolution temperature-dependent synchrotron powder X-ray diffraction on the Ce-UiO-66 MOF and its brominated variants confirms the design recipe and yields volumetric NTE coefficients surpassing current records. This work establishes a data-driven strategy for engineering NTE in MOFs, showing how machine learning-accelerated discovery and targeted experimental validation together unlock predictive materials design.

cond-mat.mtrl-sci↗

arXiv2025

Machine Learned Potential for High-Throughput Phonon Calculations of Metal-Organic Frameworks

Metal-organic frameworks (MOFs) are highly porous and versatile materials studied extensively for applications such as carbon capture and water harvesting. However, computing phonon-mediated properties in MOFs, like thermal expansion and mechanical stability, remains challenging due to the large number of atoms per unit cell, making traditional Density Functional Theory (DFT) methods impractical for high-throughput screening. Recent advances in machine learning potentials have led to foundation atomistic models, such as MACE-MP-0, that accurately predict equilibrium structures but struggle with phonon properties of MOFs. In this work, we developed a workflow for computing phonons in MOFs within the quasi-harmonic approximation with a fine-tuned MACE model, MACE-MP-MOF0. The model was trained on a curated dataset of 127 representative and diverse MOFs. The fine-tuned MACE-MP-MOF0 improves the accuracy of phonon density of states and corrects the imaginary phonon modes of MACE-MP-0, enabling high-throughput phonon calculations with state-of-the-art precision. The model successfully predicts thermal expansion and bulk moduli in agreement with DFT and experimental data for several well-known MOFs. These results highlight the potential of MACE-MP-MOF0 in guiding MOF design for applications in energy storage and thermoelectrics.

cond-mat.mtrl-sci↗

arXiv2022

Scalable Hybrid Deep Neural Networks/Polarizable Potentials Biomolecular Simulations including long-range effects

Deep-HP is a scalable extension of the \TinkerHP\ multi-GPUs molecular dynamics (MD) package enabling the use of Pytorch/TensorFlow Deep Neural Networks (DNNs) models. Deep-HP increases DNNs MD capabilities by orders of magnitude offering access to ns simulations for 100k-atom biosystems while offering the possibility of coupling DNNs to any classical (FFs) and many-body polarizable (PFFs) force fields. It allows therefore to introduce the ANI-2X/AMOEBA hybrid polarizable potential designed for ligand binding studies where solvent-solvent and solvent-solute interactions are computed with the AMOEBA PFF while solute-solute ones are computed by the ANI-2x DNN. ANI-2X/AMOEBA explicitly includes AMOEBA's physical long-range interactions via an efficient Particle Mesh Ewald implementation while preserving ANI-2X's solute short-range quantum mechanical accuracy. The DNNs/PFFs partition can be user-defined allowing for hybrid simulations to include biosimulation key ingredients such as polarizable solvents, polarizable counter ions, etc... ANI-2X/AMOEBA is accelerated using a multiple-timestep strategy focusing on the models contributions to low-frequency modes of nuclear forces. It primarily evaluates AMOEBA forces while including ANI-2x ones only via correction-steps resulting in an order of magnitude acceleration over standard Velocity Verlet integration. Simulating more than 10 $μ$, we compute charged/uncharged ligands solvation free energies in 4 solvents, and absolute binding free energies of host-guest complexes from SAMPL challenges. ANI-2X/AMOEBA average errors are within chemical accuracy opening the path towards large-scale hybrid DNNs simulations, at force-field cost, in biophysics and drug discovery.

physics.chem-ph↗

arXiv2022

Accurate Deep Learning-aided Density-free Strategy for Many-Body Dispersion-corrected Density Functional Theory

Using a Deep Neuronal Network model (DNN) trained on the large ANI-1 data set of small organic molecules, we propose a transferable density-free many-body dispersion model (DNN-MBD). The DNN strategy bypasses the explicit Hirshfeld partitioning of the Kohn-Sham electron density required by MBD models to obtain the atom-in-molecules volumes used by the Tkatchenko-Scheffler polarizability rescaling. The resulting DNN-MBD model is trained with minimal basis iterative Stockholder atomic volumes and, coupled to Density Functional Theory (DFT), exhibits comparable (if not greater) accuracy to other approaches based on different partitioning schemes. Implemented in the Tinker-HP package, the DNN-MBD model decreases the overall computational cost compared to MBD models where the explicit density partitioning is performed. Its coupling with the recently introduced Stochastic formulation of the MBD equations (J. Chem. Theory. Comput., 2022, 18, 3, 1633-1645) enables large routine dispersion-corrected DFT calculations at preserved accuracy. Furthermore, the DNN electron density-free features extend MBD's applicability beyond electronic structure theory within methodologies such as force fields and neural networks.

physics.chem-ph↗

arXiv2021

Tinker-HP : Accelerating Molecular Dynamics Simulations of Large Complex Systems with Advanced Point Dipole Polarizable Force Fields using GPUs and Multi-GPUs systems

We present the extension of the Tinker-HP package (Lagardère et al., Chem. Sci., 2018,9, 956-972) to the use of Graphics Processing Unit (GPU) cards to accelerate molecular dynamics simulations using polarizable many-body force fields. The new high-performance module allows for an efficient use of single- and multi-GPU architectures ranging from research laboratories to modern supercomputer centers. After detailing an analysis of our general scalable strategy that relies on OpenACC and CUDA, we discuss the various capabilities of the package. Among them, the multi-precision possibilities of the code are discussed. If an efficient double precision implementation is provided to preserve the possibility of fast reference computations, we show that a lower precision arithmetic is preferred providing a similar accuracy for molecular dynamics while exhibiting superior performances. As Tinker-HP is mainly dedicated to accelerate simulations using new generation point dipole polarizable force field, we focus our study on the implementation of the AMOEBA model. Testing various NVIDIA platforms including 2080Ti, 3090, V100 and A100 cards, we provide illustrative benchmarks of the code for single- and multi-cards simulations on large biosystems encompassing up to millions of atoms. The new code strongly reduces time to solution and offers the best performances to date obtained using the AMOEBA polarizable force field. Perspectives toward the strong-scaling performance of our multi-node massive parallelization strategy, unsupervised adaptive sampling and large scale applicability of the Tinker-HP code in biophysics are discussed. The present software has been released in phase advance on GitHub in link with the High Performance Computing community COVID-19 research efforts and is free for Academics (see https://github.com/TinkerTools/tinker-hp).

physics.comp-ph↗