arXiv subjects

Xuan Bai

Publications and source records attributed to Xuan Bai.

5 recordsLinked to original sources

arXiv2026

NPSolver: Neural Poisson Solver with Iterative Physics Supervision

Efficiently solving Poisson equations on complex, irregular domains remains a fundamental challenge in scientific computing, as classical iterative solvers often suffer from prohibitive runtime due to ill-conditioned systems. While neural operators offer a fast alternative, they typically rely on large-scale labeled datasets or struggle with unstable training dynamics when using physics-informed residual losses. We propose \textsc{NPSolver}, a neural Poisson solver trained without solution labels via iterative physics supervision. Instead of relying on fully converged numerical solutions or raw PDE residuals, \textsc{NPSolver} utilizes a small number of preconditioned conjugate gradient (PCG) steps to refine its own predictions, providing a more stable and well-scaled training signal. Theoretical analysis confirms that this iterative supervision serves as a well-conditioned error proxy and that a stop-gradient design is essential for optimization stability. To better capture boundary-driven features under mixed boundary conditions, we further introduce the Boundary-Aware Transolver (\textsc{BA-Transolver}) architecture that explicitly separates interior and boundary tokenization. Extensive evaluations on 2D and 3D irregular geometries demonstrate that \textsc{NPSolver} outperforms both physics-informed and data-driven baselines. Furthermore, a downstream thermal control task highlights the model's capability for conducting efficient and reliable gradient-based boundary control. We will release our codes and data at https://github.com/intell-sci-comput/NPSolver.

cs.LG↗

arXiv2025

Benchmarking neural surrogates on realistic spatiotemporal multiphysics flows

Predicting multiphysics dynamics is computationally expensive and challenging due to the severe coupling of multi-scale, heterogeneous physical processes. While neural surrogates promise a paradigm shift, the field currently suffers from an "illusion of mastery", as repeatedly emphasized in top-tier commentaries: existing evaluations overly rely on simplified, low-dimensional proxies, which fail to expose the models' inherent fragility in realistic regimes. To bridge this critical gap, we present REALM (REalistic AI Learning for Multiphysics), a rigorous benchmarking framework designed to test neural surrogates on challenging, application-driven reactive flows. REALM features 11 high-fidelity datasets spanning from canonical multiphysics problems to complex propulsion and fire safety scenarios, alongside a standardized end-to-end training and evaluation protocol that incorporates multiphysics-aware preprocessing and a robust rollout strategy. Using this framework, we systematically benchmark over a dozen representative surrogate model families, including spectral operators, convolutional models, Transformers, pointwise operators, and graph/mesh networks, and identify three robust trends: (i) a scaling barrier governed jointly by dimensionality, stiffness, and mesh irregularity, leading to rapidly growing rollout errors; (ii) performance primarily controlled by architectural inductive biases rather than parameter count; and (iii) a persistent gap between nominal accuracy metrics and physically trustworthy behavior, where models with high correlations still miss key transient structures and integral quantities. Taken together, REALM exposes the limits of current neural surrogates on realistic multiphysics flows and offers a rigorous testbed to drive the development of next-generation physics-aware architectures.

cs.LG↗

arXiv2025

Unraveling the Molecular Structure of Lipid Nanoparticles through in-silico Self-Assembly for Rational Delivery Design

Lipid nanoparticles (LNPs) are a leading platform in the delivery of RNA-based therapeutics, playing a pivotal role in the clinical success of mRNA vaccines and other nucleic acid drugs. Their performance in RNA encapsulation and delivery is critically governed by the molecular structure of ionizable lipids and the overall formulation composition. However, mechanistic insight into how these factors govern LNP architecture and function remains limited, primarily owing to the challenges of capturing nanoscale assembly and organization using experimental techniques. Here, we employ coarse-grained molecular dynamics simulations to systematically investigate how ionizable lipid chemistry influences LNP self-assembly, internal organization, and surface properties. We further explore the effects of formulation ratios and pH-dependent deprotonation on both the internal structure and surface morphology of LNPs. Leveraging these insights, we demonstrate how in silico structural characteristics can inform the rational design of novel ionizable lipids and optimization of formulation ratios, supported with experimental validations. Our findings offer a molecular-level understanding of LNP assembly dynamics and architecture, thereby establishing a computational framework linking lipid chemistry and LNP formulation to the structure and performance of LNP, to advance the rational design of novel LNP delivery systems.

cond-mat.soft↗

arXiv2024

LipidBERT: A Lipid Language Model Pre-trained on METiS de novo Lipid Library

In this study, we generate and maintain a database of 10 million virtual lipids through METiS's in-house de novo lipid generation algorithms and lipid virtual screening techniques. These virtual lipids serve as a corpus for pre-training, lipid representation learning, and downstream task knowledge transfer, culminating in state-of-the-art LNP property prediction performance. We propose LipidBERT, a BERT-like model pre-trained with the Masked Language Model (MLM) and various secondary tasks. Additionally, we compare the performance of embeddings generated by LipidBERT and PhatGPT, our GPT-like lipid generation model, on downstream tasks. The proposed bilingual LipidBERT model operates in two languages: the language of ionizable lipid pre-training, using in-house dry-lab lipid structures, and the language of LNP fine-tuning, utilizing in-house LNP wet-lab data. This dual capability positions LipidBERT as a key AI-based filter for future screening tasks, including new versions of METiS de novo lipid libraries and, more importantly, candidates for in vivo testing for orgran-targeting LNPs. To the best of our knowledge, this is the first successful demonstration of the capability of a pre-trained language model on virtual lipids and its effectiveness in downstream tasks using web-lab data. This work showcases the clever utilization of METiS's in-house de novo lipid library as well as the power of dry-wet lab integration.

cs.CL↗

arXiv2021

A mesoscale model for quantitative phospholipid monolayer simulations at the air-water interface

A mesoscale model with molecular resolutions is presented for the dipalmitoyl-phosphatidylcholine (DPPC) and 1-palmitoyl-2-oleyl-sn-glycero-3-phosphocholine (POPC) monolayer simulations at the air-water interface using many-body dissipative particle dynamics (MDPD). The parameterization scheme is rigorously based on reproducing the physical properties of water and alkane and the interfacial property of the phospholipid monolayer by comparing with our experimental results. The MDPD model yields a similar surface pressure-area isotherm as well as the similar pressure-related morphologies compared with the all-atomistic simulations and experiments. Moreover, the compressibility modulus, order parameter of lipid tails, and thickness of the MDPD phospholipid monolayer are quantitatively in line with the all-atomistic simulations and experiments. This model can also capture the sensitive changes in the pressure-area isotherms of the mixed DPPC/POPC monolayers with altered mixed ratios by comparing with the experiments, indicating that our model scheme is promising in applications for complex natural phospholipid monolayers. These results demonstrate a significant improvement on quantitative phospholipid monolayer simulations over the previous coarse-grained models.

physics.bio-ph↗