Atmospheric and Oceanic Physics
A Sequence-to-Sequence ConvLSTM Approach for Leaf Area Index Forecasting over the South-Central United States
Zhixing Ruan and Lixin Lu
Leaf Area Index (LAI) is a fundamental biophysical variable governing land-atmosphere interactions; however, LAI
forecasting at high spatial resolution remains an unsolved challenge. While recent machine learning approaches have demonstrated LAI estimation at point or regional scales, none provides a gridded, meteorology-driven prognostic forecast suitable for subseasonal land surface and
climate modeling applications. Here we present a sequence-to-sequence Convolutional LSTM (ConvLSTM) framework that generates daily 1-km LAI forecasts up to 30 days ahead, driven by historical LAI sequences and daily meteorological forcing including temperature and precipitation. Trained and evaluated over the South-Central United States – a region of strong
climate gradients and diverse vegetation – the model achieves a domain-averaged RMSE of 0.36 at a 30-day lead time, more than a third lower than the persistence baseline. Forecast skill remains robust across seasons, geographic distributions, and plant functional types, including forests, grasslands, shrublands, and croplands. To our knowledge, this is the first demonstration of skillful LAI
forecasting at a 30-day horizon at 1-km resolution.
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Fluid Dynamics
Physics-informed neural networks for two-dimensional wall-reactive solute dispersion in canonical shear flows
Nanda Poddar and Subham Dhar
The dispersion of reactive solutes in shear flows is governed by the interplay between advective stretching, transverse
diffusion, and boundary exchange kinetics. While classical analytical methods and grid-based numerical solvers have extensively characterised these transport mechanisms, accurately resolving the spatiotemporal
evolution of solute plumes in asymmetric reactive environments remains computationally demanding. In this study, we introduce a physics-informed neural network (PINN) framework to simulate two-dimensional wall-reactive solute dispersion in canonical shear flows (Couette, Poiseuille, and Couette-Poiseuille) bounded by absorbing walls. By
embedding the governing convection-
diffusion equation and Robin boundary conditions into a unified loss function, the mesh-free PINN reconstructs the spatiotemporal concentration field. The network predictions are validated against an alternating-direction implicit (ADI) finite-difference
benchmark, showing close agreement across non-reactive, symmetric, and asymmetric reactive regimes. The computations are carried out at $\mathrm{Pe}=10$ for impermeable walls, symmetric absorption $(\beta_1,\beta_2)=(1,1)$, and tenfold asymmetric wall-reactivity contrasts $(\beta_1,\beta_2)=(0.2,2)$ and (2,0.2). Leveraging the differentiable nature of the trained PINN, we extract wall-resolved transport diagnostics, including the apparent axial dispersion coefficient, cumulative wall-removal dynamics, and localised uptake fluxes. The results show that the imposed shear profile governs the streamwise organisation of reactive uptake, while unequal wall reactivities induce transverse asymmetry that modifies the macroscopic spreading rate. Overall, this framework establishes PINNs as an interpretable mesh-free tool for analysing boundary-coupled reactive transport in shear flows.
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Fluid Dynamics · Cross-listed from cs.LG
Adaptive Quantum Physics-Informed Neural Networks for Differential Equations with Applications to Fluid Dynamics
Fabio Pereira dos Santos, Renato Portugal, Júlio de Castro Vargas Fernandes et al. (+1 more)
Physics-informed neural networks (PINNs) have emerged as a versatile approach for solving nonlinear partial differential equations (PDEs), yet achieving high accuracy efficiently using these techniques remains challenging for high-dimensional or multiscale systems. Here, we present a hybrid
quantum-classical framework that enhances
Quantum PINNs (QPINNs) through adaptive collocation point sampling and loss-aware
attention mechanisms. By dynamically prioritizing points in regions with large PDE residuals or steep solution gradients, our method mitigates the spectral bias inherent in conventional PINNs. Current
Quantum Physics-Informed Neural Networks are commonly assumed to be limited by the expressive power of
quantum circuits. In our work, we observed that, across diverse differential equations, optimization - not only expressivity - can be an important bottleneck. Furthermore, a trainable loss-weighting scheme balances contributions from physics residuals, boundary conditions, and data fidelity during training. Integrating these strategies with
quantum computing techniques (including variational
quantum circuits and
quantum gradient estimation) can yield at least a 60% improvement in solution accuracy under specific regimes for
benchmark fluid flows and reaction-
diffusion systems. Finally, we argue that merely increasing model expressivity is insufficient for resolving complex PDEs via QPINNs, as they remain constrained by the structural optimization limitations of classical PINNs. This framework provides a scalable pathway for
quantum-enhanced scientific machine learning, bridging physics-based modeling with emerging
quantum computational capabilities.
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All authors Fabio Pereira dos Santos, Renato Portugal, Júlio de Castro Vargas Fernandes, Lucas Timotheo Sanches
Biological Physics · Cross-listed from q-bio.CB
Bayesian comparison of Langevin dynamics for cell motility from positional observation
Yusuke Kato, Jan Albrecht, Ted Moldenhawer et al. (+2 more)
We develop a
Bayesian framework for model comparison of second-order Langevin dynamics from position-only trajectories. While approximate increment likelihoods for nonlinear position-only inference have been formulated previously, a unified evidence-based framework for comparing multiple second-order models under positional observation has remained lacking. Here we address this problem by combining exact increment likelihoods for linear Gaussian models with a previously proposed approximate likelihood for nonlinear dynamics. Synthetic-data
benchmarks show reliable recovery of the generating model at fine sampling intervals and progressive loss of identifiability under coarse temporal sampling. Application to Dictyostelium discoideum trajectories demonstrates that the statistically supported model depends strongly on temporal resolution. Moreover, the selected models reproduce key statistical properties of the experimental trajectories, providing additional support for the model-comparison results. Our framework therefore offers a practical approach to evidence-based comparison of partially observed
stochastic dynamics.
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All authors Yusuke Kato, Jan Albrecht, Ted Moldenhawer, Robert Grossmann, Carsten Beta
Classical Physics
Conserved Quantities of Optimal Continuous-Thrust Trajectories in A Central Gravitational Field
Aimar Negrete and Ossama Abdelkhalik
This paper presents a mathematical derivation for three new conserved quantities in the motion of spacecraft on optimal continuous-thrust trajectories in a central gravitational field. The process presented in this paper is rooted in Noether's
theorem that connects the point
symmetries of a dynamic system with the associated conservation laws of the system. In the approach presented in this paper, the system's Lagrangian is modified to account for the non-conservative control force. Using this generalized Lagrangian, the action functional to be minimized is written. Then, Killing equations are formulated to find the dynamic
symmetries for this system. In this paper a process is laid out for how to solve the Killing equations; Noether's
theorem is applied to this solution of the Killing equations to write the conserved quantities of the system. Conserved quantities are presented for both the two-dimensional and the three-dimensional trajectories in several different coordinate frames. Numerical simulations and mathematical proofs are used to demonstrate that the computed quantities are conserved.
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Data Analysis and Statistics · Cross-listed from cs.LG
Deep Learning CNN and Recurrence Analysis for Alpha Gamma EEG Biomarkers in Fragile X Syndrome
Zag ElSayed, Payton Siekierski, Jack Yanchen Liu et al. (+1 more)
Fragile X Syndrome (FXS) is a neurodevelopmental disorder caused by reduced expression of fragile X mental retardation
protein (FMRP), leading to disrupted synaptic plasticity, cortical hyperexcitability, and impaired network synchronization. Electroencephalography (
EEG) provides a noninvasive window into these mechanisms and consistently reveals abnormalities in alpha (8 to 12 Hz) and gamma (30 to 100 Hz) oscillations that relate to inhibitory control, sensory processing, and cognition. This paper proposes a multi representation deep learning framework for automated characterization of FXS
EEG phenotypes by integrating convolutional neural networks (CNNs), long short-term
memory (LSTM) networks, and recurrence plot (RP) analysis. Band limited
EEG signals are decomposed into alpha and gamma components and transformed into complementary representations, including temporal feature sequences, time frequency maps, and RP images encoding the nonlinear recurrence structure. CNN modules learn discriminative spatial-spectral and dynamical textures from image based representations, while LSTM modules model temporal modulation of oscillatory activity; a hybrid CNN LSTM architecture jointly captures spatial, temporal, and nonlinear dependencies. Subject-independent evaluation demonstrates that the hybrid model outperforms single modality baselines, with gamma features providing strong discriminative power and alpha gamma integration yielding the best overall performance. These findings support deep learning with nonlinear representations as a scalable approach for
EEG biomarker development in FXS, with potential utility for diagnosis, stratification, and treatment monitoring in translational settings.
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All authors Zag ElSayed, Payton Siekierski, Jack Yanchen Liu, Ernest Pedapati
Optics · Cross-listed from astro-ph.IM
Qualification pathways for Photonic Integrated Circuits in Astrophotonic Space Missions
Kalaga Madhav, Aashia Rahman and Máté Ádámkovics
Photonic integrated
circuits (PICs) promise order-of-magnitude reductions in the size, weight and power (SWaP) of optical subsystems for astronomy, planetary and Earth-observation missions, yet no PIC-specific space-qualification standard exists. This paper consolidates the principal NASA and ESA qualification documents that apply, or can be tailored, to astrophotonic PICs — arrayed waveguide gratings, photonic lanterns, fibre Bragg gratings, and integrated beam combiners (ABCD, discrete beam combiners, nullers) for spectrographs and
stellar interferometers. A master qualification table lists 19 standard test steps with applicable standards and EU/USA test facilities. Two reference mission profiles — a LEO smallsat demonstrator and an HWO-class Lagrange-2 flagship — yield a tailoring
matrix, while a TRL-versus-test-coverage roadmap maps each activity onto the NASA/ESA readiness levels and review gates. A survey of UV/visible/near-infrared platforms relates spectral coverage, maturity and flight heritage, and a radiation-effects summary shows passive silica, Si3N4 and
laser-written cores are essentially radiation-tolerant while active III–V and Ge devices carry the hardness burden. The central outcome is a seven-phase qualification template (PIC-SQT) with explicit TRL gates, exact test procedures and mission-class tailoring; we further identify qualification processes relevant to PICs that current standards do not cover, and document 40+ years of optical-fibre flight heritage.
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Optics
Efficient Mode Conversion at 1064 nm via Bilayer Inverse Taper on Thin-Film Lithium Niobate
Ruidong Xue, Jobayer Hossain, Joshua Arnold et al. (+8 more)
Efficient fiber-to-chip coupling remains challenging for thin-film lithium niobate (TFLN) devices operating at 1064 nm. Here, we fabricate and characterize an on-chip optical mode converter based on a
bilayer inverse taper. The proposed structure demonstrated a coupling loss of 1.9 dB per facet for the TE mode, with a 1 dB bandwidth spanning 1055–1085 nm. The polarization-dependent
alignment tolerance was measured along the lateral and vertical directions. Theoretical and simulation analyses indicate that, when using a lensed fiber with a mode field diameter of 2.5 $\mu$m, the coupling loss can be reduced to as low as 0.48 dB per facet. These results demonstrate the feasibility of providing a high-efficiency solution for on-chip optical coupling at 1064 nm.
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All authors Ruidong Xue, Jobayer Hossain, Joshua Arnold, Jiuyi Zhang, Xiaofeng Zhu, Marco Moller de Freitas, Christopher J. Cullen, Shouyuan Shi, Peng Yao, Timothy Creazzo, Dennis Prather
Medical Physics
Anticipatory Digital Twins for Online Head-and-Neck Adaptive Proton Therapy via Foundation-Model Registration
Yizhou Wu, Yuheng Li, Xiaofeng Yang et al. (+1 more)
Head-and-neck (HN)
proton therapy is highly sensitive to anatomical change over a 4-to-6-week course, as tumor shrinkage, weight loss, and setup variation can misposition the Bragg peak near critical organs such as the parotids, oral cavity, brainstem, and spinal cord, leading to target underdosing or organ-at-risk overdosing. Online adaptive
proton therapy replans on the anatomy of the day, yet standard workflows rely on offline replanning that requires repeated CT acquisition and roughly a week of preparation, adding burden, cost, and delay. We investigate whether a patient's treatment-day anatomy can be predicted before image acquisition by transferring longitudinal change from a population database. We propose a digital-twin framework built on a pretrained foundation-model deformable registration network used without patient-specific training. A first registration aligns a prior patient's planning CT to the target and carries the prior's during-treatment quality assurance CT (QACT) into the target frame; a second registration estimates the prior's planning-to-QACT change, which is then applied to the target's own planning CT to synthesize predicted CTs (pdCTs) with propagated contours. Using 88 HN patients, each with a planning CT and three QACTs, we show that pdCTs better match treatment-day anatomy than the static planning CT. Compared with the planning CT alone, normalized cross-correlation improves by 22.8%, Dice for organs-at-risk by 20.2%, and CT-number error decreases by 23.4%. Gains are largest for patients with major anatomical change and negligible when anatomy is stable. This cross-patient motion transfer leverages the digital-twin concept to anticipate treatment-day anatomy, enabling personalized online adaptive
proton therapy without repeated imaging.
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All authors Yizhou Wu, Yuheng Li, Xiaofeng Yang, Chih-Wei Chang
Physics Education
Transition Matrix Analysis Analyzing Students Use of Cognitive Resources in Physics
Tianlong Zu and N. Sanjay Rebello
Conceptual surveys of multiple choice format have been developed to test the effect of pedagogical interventions on students understanding of physics knowledge. Predominantly, they are administered in pre and posttest settings and analyzed to obtain a performance gain. However, focusing on the correct answers to each question alone ignores the incorrect options which could inform us the stability and coherency of the knowledge structure of students. According to the resource model framework, each specific answer from students could reflect a specific cognitive resource being activated and implemented in the context at hand. Consequently, conceptual surveys could demonstrate how instruction could affect the activation of different cognitive resources of students in a variety of contexts when administered before and after instruction. Guided by the resources framework, we propose a transition
matrix analysis to analyze data collected through conceptual surveys to investigate how instruction affects the consistency of cognitive resources activation by students. To provide proof of concept, we demonstrated how to utilize this method by analyzing students responses to a subset of questions from the DIRECT survey in a classroom study.
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Plasma Physics
Ion stopping from bound and free electrons in plasmas: A channel-mixed RPA approach with average-atom orbitals
Zachary A Johnson, Patrick J Adrian, Joshua A Leveillee et al. (+1 more)
Ion stopping in partially ionized
plasmas often receives roughly equal contributions from bound and free electrons, yet bound electron contributions are usually treated at a very coarse level, with the exception of costly time-dependent density functional theory (TD-DFT) simulations. At energies above the Bragg peak, where linear response methods are a good approximation, more accurate treatment is both feasible and critical for predictive modeling. We develop a channel-mixed random phase approximation (cmRPA) dielectric response function that combines Lindhard free response with explicit average-atom bound state transitions. Validating against ambient condition experiments and TD-DFT simulations, we demonstrate excellent agreement for
proton stopping near and above the Bragg peak. The computational efficiency of our approach enables systematic exploration of extreme conditions across a wide range of densities and temperatures. We find non-trivial stopping effects from channel mixing between bound and free transitions via RPA, bound-bound stopping contributions at low velocity, and predict significant bound electron contributions to stopping in tungsten at peak compression conditions relevant to inertial confinement fusion experiments. Applying our model to the warm dense matter stopping experiment of Malko et al. (2022), we evaluate whether improved bound-state modeling could resolve the reported theory-experiment discrepancy, finding that within the constraints of linear response theory, bound stopping mismodeling is unlikely to be the source of the observed deficit.
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All authors Zachary A Johnson, Patrick J Adrian, Joshua A Leveillee, Charles E. Starrett
Chemical Physics · Cross-listed from cs.LG
Generic Vision and Cross-Attention for Reaction Yield Prediction
Qiwei Han and Chi Zhou
Traditional reaction yield prediction is constrained by 1D
quantum descriptors that lack explicit spatial information. To address this gap, a dual-modal
Vision Cross-
Attention architecture is proposed, fusing tabular physical-organic data with 2D molecular
topologies. Notably, it is demonstrated that a generic computer
vision backbone processing simple 2D skeletal structures independently outperforms purely
quantum-based baselines. By synergizing both modalities, superior predictive accuracy compared to traditional methodologies is achieved by the optimal cross-
attention framework (Test RMSE = 5.27%). Through mechanistic probing, active, descriptor-guided spatial querying is observed, effectively offloading macroscopic steric identification to the visual pathway. Furthermore, a dynamic chemical hierarchy is learned by the network to heavily prioritize critical steric bottlenecks, such as the aryl halide. Concurrently, residual skip connections are utilized to protect non-spatial electronic parameters from destructive attenuation during fusion. Collectively, a scalable and highly interpretable blueprint is provided for augmenting physical chemistry with deep visual learning.
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Medical Physics · Cross-listed from math.NA
Variational Inference Using a Differentiable Multigrid Linear Solver
Andrés Ramírez, Philipp Haim, David Föger et al. (+9 more)
Gradient-based
Bayesian inference methods require efficient access to Jacobian and adjoint-Jacobian operators of high-dimensional forward models. While multigrid solvers provide near-optimal complexity for
elliptic partial differential equations, they are rarely available in forms compatible with automatic differentiation (AD). We develop a differentiable multigrid solver for steady-state
diffusion-absorption problems and derive its adjoint operations analytically through the full multigrid hierarchy. The resulting solver, DMGS, is implemented in C++ and interfaced with JAX to provide efficient Jacobian-vector and vector-Jacobian products for variational inference in the NIFTy framework. We validate the approach on a 3D inverse problem involving diffuse radiative transfer in tissue, reconstructing an effective radiative source from Monte Carlo-simulated data. The reconstruction reproduces the data at a reduced chi-squared of 1.1 and generalizes to 32 independent validation
datasets.
Benchmarks against a JAX-native multigrid implementation show comparable runtimes and consistently lower peak
memory for the hand-derived adjoint, with modest reverse-mode overhead. These results establish differentiable multigrid solvers as practical building blocks for variational inference in PDE-constrained problems.
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All authors Andrés Ramírez, Philipp Haim, David Föger, Torsten A. Enßlin, Philipp Frank, Philipp Gschwandtner, Dominik Jüstel, Philipp Mertsch, Vo Hong Minh Phan, Laurin Söding, Hanieh Zandinejad, Ralf Kissmann
Classical Physics
The moving bar problem: an electromechanical damped oscillator
Carlos E. Alvarez
The conducting bar sliding on rails through a uniform
magnetic field is a standard textbook illustration of Faraday's law, almost always solved assuming the
magnetic field produced by the induced current is negligible. We extend this classic problem by retaining the self-induced field: modelling the
circuit as a rectangular loop of round wire of radius $d$, we compute in closed form its geometry-dependent self-inductance $L(x,l)$ and its gradient $dL/dx$ from the Biot–Savart law, including the flux inside the wire and at the corners. The bar then obeys coupled mechanical–electrical equations of motion containing, besides the familiar braking force $-B_0lI$, the inductance-gradient force $\tfrac{1}{2}I^2\,dL/dx$ familiar from electromagnetic launchers. In the absence of resistance the total energy $\tfrac12Mv^2+\tfrac12LI^2$ is exactly conserved; with resistance the system becomes an electromechanical damped oscillator that, in an appropriate regime, maps onto a series resistor–inductor–capacitor (RLC)
circuit with equivalent capacitance $C_{eq}=M/(l^2B_0^2)$, the bar's momentum playing the role of the capacitor charge. Numerical integration of the full equations confirms these analytic approximations in their respective regimes and locates the crossover between over-damped and under-damped behaviour.
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Computational Physics
Consistent and bound-preserving finite-volume WENO scheme for compressible two-/$N$-phase flows with Phase-Field mechanism
Ziyang Huang
In the present study, we propose a consistent and bound-preserving finite-volume WENO scheme that satisfies the requirements of consistency, conservation,
equilibrium, and bound preservation for compressible multiphase flows with the Phase-Field mechanism. The proposed WENO scheme is developed based on a new calculation of WENO weights determined by relative smoothness between stencils and on a coupled reconstruction of the masses and volume fractions. Consistency of reduction and volume fraction summation to unity are considered during the development so that fictitious phases, local voids, or overfilling are not produced numerically when there are $N$ ($N \geqslant 1$) different immiscible phases. The proposed WENO scheme is applied to the consistent and conservative Phase-Field method with adaptive mesh refinement enabled. Various
benchmark compressible two- and $N$-phase flows are performed to verify the properties of the proposed WENO scheme as well as its variant with the consistent limiter. We finally demonstrate the capability of the proposed WENO scheme in shock-induced cavity collapse and shock-vessel-bubble interaction problems, with discussion of the necessity of bound preservation for high-order schemes and comparison of different compressible multiphase flow models.
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Fluid Dynamics
Buoyancy-driven melt rate of a vertical ice surface in seawater
Ho Yin Ng and Emily S.C. Ching
Reliable estimates of the melt rate of tidewater glaciers require accurate knowledge of salt and heat fluxes at the near-vertical ice-ocean interface and such knowledge is currently lacking. In this paper, we present a theory for salt and heat fluxes in the idealized system of turbulent double-diffusive convection in an infinite vertical channel and show how this theory can be extended to give theoretical estimate of the buoyancy-driven melt rate of a vertical ice surface in seawater. Our theoretical results are shown to be in good agreement with direct numerical simulation data and measurements from laboratory experiments.
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Optics
Solitons in optical couplers: introduction and perspectives
Boris A. Malomed
This minireview provides a brief summary and a discussion of directions for further development of theoretical and, chiefly, experimental studies of bright
solitons in optical couplers, i.e., dual-core waveguides which combine the linear inter-core coupling (tunneling of light between the parallel cores with the intra-core group-velocity dispersion and self-focusing Kerr (cubic) nonlinearity. Following a short introduction to the field, the article focuses on a brief review of relatively recent experimental results for the switching of
solitons in dual-core nonlinear optical fibers and the spontaneous emergence of stable asymmetric two-core
solitons in the couplers with the symmetric dual-core structure.
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Computational Physics · Cross-listed from stat.ML
Round-Trip Consistency: Bidirectional Diffusion Models Can Predict Their Own Rollout Errors
Alexander Scheinker
Autoregressive models accumulate error over long rollouts, yet at deployment there is no ground truth to measure it against. We train a single conditional latent
diffusion model that steps a dynamical system forward or backward in time via a direction flag, and show that this bidirectionality supplies a measurement-free test-time error signal: rolling forward $i$ steps and then backward $i$ steps must return the model to its start, so the round-trip discrepancy $\mathcal{C}_i$ is a self-supervised proxy for the unobservable rollout error: no ensembles, no held-out data, no governing equations, for one extra rollout. We validate on compressible magnetohydrodynamics (MHD), an astrophysical turbulent radiative mixing layer, and natural face
videos (CelebV-HQ). On held-out MHD trajectories, $\mathcal{C}_i$ ranks rollout error (Spearman $0.91$-$0.98$ at fixed depth; $0.69 \pm 0.16$ within trajectories), and a simple calibrator fit on training rollouts predicts its magnitude to within $1.14\times$ ($68\%$) and $1.29\times$ ($95\%$) with near-nominal coverage - one nat beyond a depth-only predictor, transferring to all six decoded physical fields. The same signal flags the out-of-distribution Orszag-Tang
vortex (AUROC $0.98$; $1.0$ by depth $10$) exactly where sampling-dispersion baselines invert, and it cuts incurred error by $15\%$ at $80\%$ coverage - three times the depth-only baseline. Bidirectional training comes at negative cost, beating direction specialists in both directions, and the backward direction doubles as a fast inverse solver. On LE-PDE-UQ's turbulent Navier-Stokes
benchmark, a single bidirectional model reaches accuracy within $1.3\times$ of their ten-model ensemble at a tenth of the training cost, with the best training-free pixel-level calibration. Round-trip consistency turns reversibility into a practical trust signal for generative models.
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Biological Physics
No persistent circadian oscillator at genome resolution: pseudo-coherence in gut microbiome dynamics
V. Troude, L. Takayasu, R. Maskawa et al. (+4 more)
Diurnal rhythms in the gut microbiome are commonly read as evidence of host-driven entrainment or of microbial oscillators that synchronise to a common clock. We reanalyse hourly genome-resolved (MAG-level) mouse-gut time series with diagnostics tailored to test that interpretation. At this resolution and for both animals in the
dataset, the time-frequency representation carries no persistent ridge; the time-averaged spectrum is enhanced at low frequencies and depleted at intermediate frequencies; the lagged covariance is markedly time-asymmetric, with a global imbalance peak near tens of hours; and an amplitude-adjusted
Fourier surrogate test identifies a weak time-averaged construction in the candidate circadian band, never as a fixed time-frequency ridge. The two functional guilds that carry the inferred non-normal amplification are identified independently by the rankings of two inferred dynamical modes (the reaction mode, into which fluctuations are transiently amplified, and the non-normal mode, which injects them), and recover the primary polysaccharide degraders of Bacteroidota and the secondary butyrate and propionate fermenters of Bacillota A without invoking any phase information. The conjunction of these signatures matches a stable but strongly non-normal
stochastic regime, that is, pseudo-coherence:
geometric amplification reshapes
stochastic fluctuations onto a low-dimensional reaction subspace, producing intermittent synchronisation-like episodes, broken time-reversal
symmetry, and emergent time-averaged characteristic scales without an underlying oscillator. We propose a falsifiable test via high-resolution clock-gene-knockout cohorts.
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All authors V. Troude, L. Takayasu, R. Maskawa, W. Suda, D. Sornette, H. Takayasu, M. Takayasu
Biological Physics
Is K+ current in Action Potential real?
János Végh
The correct description of ion traffic during an Action Potential in
neurons has fundamental importance from its theoretical description to practical clinical applications. The classical Hodgkin-Huxley theory hypothesized that a delayed K+ current causes the hyperpolarization of the Action Potential. The paper shows that the membrane's capacitive current was misinterpreted as K+ current, and that the direct evidence for that current is an experimental artifact, both arising from an incomplete understanding of the electrical model. After introducing the Axon Initial Segment (discovered decades after constructing the classical model) and using the correct cross-disciplinary physical laws for living nature (instead of using laws valid for inanimate nature), one can construct the correct model for neuronal operation, which provides the perfect description of neuronal operation, including the Action Potential, in full accordance with the laws of science.
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Optics
Generation and manipulation of multipole and vortex events in (1+1)-dimensional spacetime
Yiming Pan and Guowei Chen
An event is usually regarded as a zero-dimensional coordinate label in spacetime, rather than as an object with spatial extent, internal structure or
topology. Here we show that in nonlinear photonic spacetime
crystals, a complete energy-momentum gap ($\omega k$-gap) suppresses extended radiation channels, while Kerr self-trapping localizes an optical occurrence in the physical $(x,t)$ plane. Imposing and relaxing
symmetry constraints then yields multipole and
vortex events with distinct internal structure. Their spacetime action of these states establishes a hierarchy of structural cost, Bogoliubov-de Gennes spectra distinguish phase-winding
vortices from real-valued multipoles, and initial-value reconstructions provide an independent robustness check together with a finite preparation window. Using representative optical parameters, we predict that these structured events span transverse scales of 30-60 $\mu$m and temporal duration of 85-170 fs. These results suggest that an event can be treated not only as a point label, but also as a localized wave object with controllable internal degrees of freedom, offering a route to wave control in time-varying nonlinear media.
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Atomic Physics
Spectroscopy of the Hyperfine Structure of HD$^+$ in Rotationally Excited States with 10-ppb Uncertainty
D. Kliukin, V. Barbé, T. Klijn Velderman et al. (+5 more)
We report the first measurement of the total hyperfine interval in the
manifold of the ($v=0,L=3$) rovibrational state of HD$^+$ using microwave spectroscopy of HD$^+$ ions in a linear Paul trap. To overcome the low (0.2%) occupancy of the
quantum states involved, we employ a novel technique that combines intermittent Majorana depolarization of the HD$^+$ ensemble with redistribution of rotational-state population by blackbody radiation to effectively amplify the occupancy by a factor of 25. This enables the observation of a single field-insensitive
magnetic subcomponent of the hyperfine transition, leading to a measured total hyperfine interval of ${1\,050\,804.511}\pm 0.011\,$kHz with an unprecedented relative uncertainty of 10 parts per billion. This differs from the theoretically predicted value ${1\,050\,802.78}\pm 0.89\,$kHz by 1.9$\sigma$. We show that our experimental value is consistent with the recently measured hyperfine structure of the ($v=0,L=0$) rovibrational state of HD$^+$ [C.M. König et al., High-precision Penning trap spectroscopy of the ground state
spin structure of HD$^+$, Phys. Rev. Lett. $\mathbf{136}$,143002 (2026)], for which a similar deviation from theory was found. Our work may help resolve puzzling discrepancies between the theoretical and experimental hyperfine structure observed previously in optical rovibrational spectra of HD$^+$.
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All authors D. Kliukin, V. Barbé, T. Klijn Velderman, J.B.E. Schokking, J. John, K.S.E. Eikema, J.C.J. Koelemeij, J.-Ph. Karr
Optics
Electro-Optic Active Metasurfaces for High-Speed Photonic Applications
Mingwei Tang, Ruochong Chen, Yue Cao et al. (+6 more)
Metasurfaces are artificially engineered ultrathin nanostructured surfaces, capable of flexibly manipulating light-matter interactions on compact platforms, and thereby of great significance for a wide range of applications within modern optics and photonics, including communications, computing, sensing, and
quantum technologies. However, the inherently static nature of conventional metasurfaces severely limits their functionalities and thus range of possible applications. Benefiting from integration of the metasurface platform for shaping optical wavefronts with ultrafast electro-optic (EO) materials, active EO metasurfaces have emerged as a frontier research direction targeting advanced photonic devices. This paper systematically reviews the latest progress in this field, featuring a comprehensive comparison of performances and application scenarios of mainstream EO materials such as lithium niobate, barium titanate and organic EO
polymers. Modulation mechanisms based on the Pockels and Kerr effects along with the corresponding active metasurface implementations are summarized. Furthermore, improvements in modulation efficiency enabled by advantageously exploiting resonant structural designs and associated phenomena, including Fabry-Perot resonances, Mie resonances, surface plasmon polaritons, quasi-bound states in the continuum, surface
lattice resonances, and guided-mode resonances, are presented and summerized in detail. Current challenges related to metasurface design, nanofabrication, performance and heterogeneous integration are also discussed. Finally, future research directions are outlined, highlighting interdisciplinary developments, novel material engineering, and AI-assisted design as key pathways to enable practical use of active EO metasurfaces in modern optics and photonics, including
quantum information technologies.
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All authors Mingwei Tang, Ruochong Chen, Yue Cao, Chao Meng, Fei Ding, Yadong Deng, Yubing Han, Kai Wei, Sergey I. Bozhevolnyi
Physics and Society
Beyond Lanes: Traffic Flow Dynamics in Disordered Conditions Based on High-Resolution Trajectory Data
Shrey Agrawal, Gowri Asaithambi, Venkatesan Kanagaraj et al. (+3 more)
Disordered traffic flow is characterized by weak or non-existent lane discipline in the presence of strong vehicle heterogeneity and continuous lateral interactions, challenging traditional lane-based modeling assumptions. This study presents an empirical study of macroscopic and microscopic aspects of disordered traffic using high-resolution
UAV trajectory data collected on an urban arterial. A two-dimensional extension of Edie's framework is applied to quantify aggregate traffic variables and produce a two-dimensional fundamental diagram, revealing that traffic states cannot be adequately represented using one-dimensional formulations and highlighting the persistent role of lateral redistribution. The propagation of congestion is estimated directly from the spatiotemporal speed fields, demonstrating the emergence of coherent stop-and-go waves and showing a similar dynamics as conventional lane-based flow, in spite of the heterogeneous vehicle interactions. At the microscopic level, steady-state follower-leader identification is used to examine desired time gaps and minimum lateral spacing, vehicle dimension distributions, and kinematic characteristics, revealing pronounced inter-class heterogeneity that explains disordered traffic behavior. The study provides an empirical framework linking vehicle-level interactions and aggregate traffic dynamics and establishes a data-driven basis for the calibration and validation of traffic models for disordered mixed traffic systems.
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All authors Shrey Agrawal, Gowri Asaithambi, Venkatesan Kanagaraj, Martin Treiber, Ostap Okhrin, Harish Babu Kumara
Applied Physics · Cross-listed from cond-mat.mes-hall
Spin selectivity induced by non-collinear spins in Rashba wires
Luciano Jacopo D'Onofrio, Maria Teresa Mercaldo, Mario Cuoco et al. (+1 more)
We report a previously overlooked general mechanism to obtain highly efficient
spin selectivity in conventional time-reversal symmetric one-dimensional systems without invoking phase decoherence. We reveal that Rashba
quantum wires featuring non-collinear
spin states at the
Fermi level inherently possess
spin-selective transport properties. We show that this
spin noncollinearity can be systematically designed and engineered by introducing an additional pseudospin degree of freedom - such as valley, sublattice, or orbital angular momentum - into
spin-orbit coupled systems. By applying this framework to multi-subband semiconducting
quantum wires and
oxide nanowires, we establish a generalized route toward
quantum-coherent
spin selectivity up to 10 %. Our findings offer practical design principles for
spin-selective transport devices.
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All authors Luciano Jacopo D'Onofrio, Maria Teresa Mercaldo, Mario Cuoco, Carmine Ortix
Optics · Cross-listed from quant-ph
Breakdown of the optical saturation regime in molecular single-photon emitters
Hugo Levy-Falk, Daniele De Bernardis, Elena Fanella et al. (+2 more)
Solid-state single organic molecules, such as dibenzoterrylene (DBT) in organic
matrices, are prominent deterministic single-
photon sources, usually modeled as effective two-level systems (TLS). We show that single DBT molecules in anthracene nanocrystals, under strong continuous-wave driving, depart from this picture: instead of the expected saturation, fluorescence is strongly suppressed at high resonant pump power, while the linewidth broadens beyond the TLS prediction – an anomalous saturation regime. Comparing coherent and incoherent excitation and independently calibrating temperature via
phonon-induced dephasing rules out
laser-induced heating and intersystem crossing. Instead, a model of intensity-dependent excited-state absorption (ESA) toward a short-lived dark state quantitatively reproduces both the fluorescence suppression and the linewidth broadening. We further show that
matrix quality mitigates this quenching, and that pulsed excitation schemes are strategic toward full population inversion, with direct implications for
quantum nanophotonics and molecular optomechanics.
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All authors Hugo Levy-Falk, Daniele De Bernardis, Elena Fanella, Louise Morlaës, Costanza Toninelli
Data Analysis and Statistics · Cross-listed from cond-mat.mtrl-sci
Uncertainty-guided active learning for surrogate prediction of stream-finishing wear fields
Anand Kumar, Puli Saikiran, Vineet Dawara et al. (+1 more)
In stream finishing, the wear experienced by a workpiece depends strongly on its orientation within the rotating abrasive media. Determining suitable orientations to achieve uniform wear requires evaluating the wear-rate field over all feasible orientations. Although the discrete element method (DEM) accurately resolves particle interactions, simulating hundreds of feasible orientations for a new geometry is computationally expensive. We present an uncertainty-guided surrogate framework that predicts, directly from geometry, the three fields governing erosion: per-triangle normal impact velocity, tangential impact velocity, and particle impact flux. These fields are combined through the Finnie wear model to reconstruct the wear-rate distribution. The surrogate employs a deep ensemble whose disagreement estimates epistemic uncertainty, enabling an active-learning strategy that selectively performs DEM simulations for the most uncertain orientations. Trained using only $13\%$ of the $696$ feasible orientations, the surrogate achieves Spearman rank correlations of $0.93$, $0.89$, and $0.93$ for the normal impact velocity, tangential impact velocity, and particle impact flux, respectively. Moreover, the predicted uncertainty is well calibrated, reliably anticipating prediction error and the fidelity of the reconstructed wear field, which matches DEM with a Spearman rank correlation of up to $0.97$ for low-uncertainty orientations and degrades in a controlled manner as uncertainty increases.
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All authors Anand Kumar, Puli Saikiran, Vineet Dawara, Koushik Viswanathan
Fluid Dynamics · Cross-listed from math.NA
A semi-implicit double-point Material Point Method for both free-surface flow and seepage in deformable porous media
Mian Xie, Pedro Navas and Susana López-Querol
A new semi-implicit, two-phase, double-point formulation of the Material Point Method (MPM) for soil-water interaction with seepage and free-surface flows under large deformation is presented in this paper. The approach advances the water phase implicitly while keeping the soil phase explicit, enabling stable, efficient time integration in problems that involve rapid seepage and strong free-surface motion. The proposed framework models high-Reynolds-number interphase drag through a non-linear Darcy's law implemented for the first time within an incremental fractional step MPM formulation without enlarging the implicit solve. This methodology also enhances the numerical stability for fast flows and wave breaking via a hyperelastic constitutive treatment of slightly compressible viscous water, and mitigates spurious oscillations through a new stabilisation approach for the velocity. Robustness of soil-water interface is achieved by combining nodal-based, free-surface detection, suited for higher-order spline functions with smooth porosity-permeability transitions that avoid constitutive divergence at sharp material boundaries. Validation against laboratory
benchmark cases reported in the literature, including pure-water dam break, dam-break seepage through a porous barrier, two granular-collapse tsunami experiments, and a dam-break wave over a movable granular bed, shows accurate and stable free-surface
evolution, pressure time histories, seepage fronts, and wave-gauge records. Using an advanced critical-state soil model (NorSand) further improves the reproduction of granular flow kinematics. The results demonstrate that the proposed formulation is a reliable and computationally efficient tool for geotechnical hazards involving intense soil-water coupling, seepage, sediment transport and free water.
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Computational Physics · Cross-listed from quant-ph
Adaptive operator-generated subspaces for effective many-body Hamiltonians
Ginanjar Utama and Hermawan Kresno Dipojono
Electronic-structure and
embedding workflows terminate in effective many-body
Hamiltonians, whereas
quantum eigensolver studies often start from hand-built
qubit models. We present the Adaptive Clifford-
Algebra Subspace Eigensolver (A-CASE), a single-reference, operator-generated Rayleigh–Ritz method. Overlap,
Hamiltonian, observable, and response
matrices are reconstructed from one shared Pauli-expectation bank, while adaptive growth scores overlap-aware local pencils and rejects
symmetry leakage or near-linear dependence. A strict FCIDUMP adapter supplies the active-space boundary. For linear H$_4$ in STO-3G with CAS(4e,4o), the mapped sector agrees with independent determinant FCI to $3.1\times10^{-15}$ Ha. At a nine-vector budget A-CASE has a $3.019$ mHa error; replacing the determinant reference by a two-operator ADAPT-VQE state reduces it to $0.342$ mHa, without implying a matched total-cost advantage. Under a matched contract, the fixed-reference route uses one state preparation versus ADAPT-VQE's ninety but measures roughly an order of magnitude more Pauli words. Exact fixed-angle ADAPT-GCIM gives $13.364$ mHa at the nearest size match and $10.674$ mHa at the iteration match, with its transition-pair burden reported separately. Across a broader
benchmark ladder, fixed Krylov bases are generally more accurate and often narrower but substantially less well conditioned. A grouped bootstrap propagates finite-shot variability through thresholding, diagonalization, root matching, spectral weights, susceptibility, and broadening; its bands are explicitly heuristic and conditional, not finite-sample confidence certificates. The work establishes an executable path from an interchange
Hamiltonian to energies, correlations, and response, without claiming materials accuracy, favorable scaling, or
quantum advantage.
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