Tootfinder

This https://arxiv.org/abs/2407.13958 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_sta…

Fast and flexible inference for spatial extremes
Statistical modelling of spatial extreme events has gained increasing attention over the last few decades with max-stable processes, and more recently $r$-Pareto processes, becoming the reference tools for the statistical analysis of asymptotically dependent data. Although inference for r-Pareto processes is easier than for max-stable processes, there remain major hurdles for their application to high dimensional datasets within a reasonable timeframe. In addition, both approaches have almost e…

Convex Approximations of Random Constrained Markov Decision Processes
V Varagapriya, Vikas Vikram Singh, Abdel Lisser
https://arxiv.org/abs/2505.24815 http…

Convex Approximations of Random Constrained Markov Decision Processes
Constrained Markov decision processes (CMDPs) are used as a decision-making framework to study the long-run performance of a stochastic system. It is well-known that a stationary optimal policy of a CMDP problem under discounted cost criterion can be obtained by solving a linear programming problem when running costs and transition probabilities are exactly known. In this paper, we consider a discounted cost CMDP problem where the running costs and transition probabilities are defined using ran…

Selection rules for charged lepton flavour violating processes from residual flavour groups
Lorenzo Calibbi, Claudia Hagedorn, Michael A. Schmidt, James Vandeleur
https://arxiv.org/abs/2505.24350

Selection rules for charged lepton flavour violating processes from residual flavour groups
We systematically investigate the possible phenomenological impact of residual flavour groups in the charged lepton sector. We consider all possible flavour charge assignments for abelian residual symmetries up to Z8. The allowed flavour structures of operators in Standard Model Effective Field Theory (up to dimension six) lead to distinctive and observable patterns of charged lepton flavour violating processes. We illustrate the relevance of such selection rules displaying the current bounds o…

First-Passage-Time Asymmetry for Biased Run-and-Tumble Processes
Yonathan Sarmiento, Benjamin Walter, Debraj Das, Samvit Mahapatra, \'Edgar Rold\'an, Rosemary J. Harris
https://arxiv.org/abs/2505.24483

First-Passage-Time Asymmetry for Biased Run-and-Tumble Processes
We explore first-passage phenomenology for biased active processes with a renewal-type structure, focusing in particular on paradigmatic run-and-tumble models in both discrete and continuous state spaces. In general, we show there is no symmetry between distributions of first-passage times to symmetric barriers positioned in and against the bias direction; however, we give conditions for such a duality to be restored asymptotically (in the limit of a large barrier distance) and highlight connec…

A universal constraint for relaxation rates for quantum Markov generators: complete positivity and beyond
Dariusz Chru\'sci\'nski, Frederik vom Ende, Gen Kimura, Paolo Muratore-Ginanneschi
https://arxiv.org/abs/2505.24467

A universal constraint for relaxation rates for quantum Markov generators: complete positivity and beyond
Relaxation rates are key characteristics of quantum processes, as they determine how quickly a quantum system thermalizes, equilibrates, decoheres, and dissipates. While they play a crucial role in theoretical analyses, relaxation rates are also often directly accessible through experimental measurements. Recently, it was shown that for quantum processes governed by Markovian semigroups, the relaxation rates satisfy a universal constraint: the maximal rate is upper-bounded by the sum of all rat…

Adaptive finite element type decomposition of Gaussian processes
Jaehoan Kim, Anirban Bhattacharya, Debdeep Pati
https://arxiv.org/abs/2505.24066 https://

Adaptive finite element type decomposition of Gaussian processes
In this paper, we investigate a class of approximate Gaussian processes (GP) obtained by taking a linear combination of compactly supported basis functions with the basis coefficients endowed with a dependent Gaussian prior distribution. This general class includes a popular approach that uses a finite element approximation of the stochastic partial differential equation (SPDE) associated with Matérn GP. We explored another scalable alternative popularly used in the computer emulation literatu…

AI's real threat to education isn't that it encourages students to cheat, but that it short-circuits the learning processes needed to use generative AI adeptly (Nicholas Carr/New Cartographies)
https://www.newcartographies.com/p/the-myth-of-automated-lear…

The Myth of Automated Learning
AI's real threat to education.

Toward Knowledge-Guided AI for Inverse Design in Manufacturing: A Perspective on Domain, Physics, and Human-AI Synergy
Hugon Lee, Hyeonbin Moon, Junhyeong Lee, Seunghwa RYu
https://arxiv.org/abs/2506.00056

Toward Knowledge-Guided AI for Inverse Design in Manufacturing: A Perspective on Domain, Physics, and Human-AI Synergy
Artificial intelligence (AI) is reshaping inverse design across manufacturing domain, enabling high-performance discovery in materials, products, and processes. However, purely data-driven approaches often struggle in realistic settings characterized by sparse data, high-dimensional design spaces, and nontrivial physical constraints. This perspective argues for a new generation of design systems that transcend black-box modeling by integrating domain knowledge, physics-informed learning, and in…

Thinking in Character: Advancing Role-Playing Agents with Role-Aware Reasoning
Yihong Tang, Kehai Chen, Muyun Yang, Zhengyu Niu, Jing Li, Tiejun Zhao, Min Zhang
https://arxiv.org/abs/2506.01748

Thinking in Character: Advancing Role-Playing Agents with Role-Aware Reasoning
The advancement of Large Language Models (LLMs) has spurred significant interest in Role-Playing Agents (RPAs) for applications such as emotional companionship and virtual interaction. However, recent RPAs are often built on explicit dialogue data, lacking deep, human-like internal thought processes, resulting in superficial knowledge and style expression. While Large Reasoning Models (LRMs) can be employed to simulate character thought, their direct application is hindered by attention diversi…

"The waste of having processes that create defects and then use inspection to catch them is certainly something to avoid. A significant part of the effort in code reviews should be geared toward capturing learning that can be applied to current processes to improve them so fewer bugs are created in the future.
..."

This https://arxiv.org/abs/2505.12018 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_csCR_…

A Human Study of Cognitive Biases in CTF Challenges
Cybersecurity training has become a crucial part of computer science education and industrial onboarding. Capture the Flag (CTF) competitions have emerged as a valuable, gamified approach for developing and refining the skills of cybersecurity and software engineering professionals. However, while CTFs provide a controlled environment for tackling real world challenges, the participants' decision making and problem solving processes remain under explored. Recognizing that psychology may play a …

Deep learning-derived arterial input function
Junyu Chen, Zirui Jiang, Jennifer M. Coughlin, Martin G. Pomper, Yong Du
https://arxiv.org/abs/2505.24166 htt…

Deep learning-derived arterial input function
Dynamic positron emission tomography (PET) imaging combined with radiotracer kinetic modeling is a powerful technique for visualizing biological processes in the brain, offering valuable insights into brain functions and neurological disorders such as Alzheimer's and Parkinson's diseases. Accurate kinetic modeling relies heavily on the use of a metabolite-corrected arterial input function (AIF), which typically requires invasive and labor-intensive arterial blood sampling. While alternative non…

Inhomogeneous mark correlation functions for general marked point processes
Mehdi Moradi, Matthias Eckardt
https://arxiv.org/abs/2505.24501 https://…

Inhomogeneous mark correlation functions for general marked point processes
Spatial phenomena in environmental and biological contexts often involve events that are unevenly distributed across space and carry attributes, whose associations/variations are space-dependent. In this paper, we introduce the class of inhomogeneous mark correlation functions, capturing mark associations/variations, while explicitly accounting for the spatial inhomogeneity of events. The proposed functions are designed to quantify how, on average, marks vary or associate with one another as a …

Interpretable Spatio-Temporal Features Extraction based Industrial Process Modeling and Monitoring by Soft Sensor
Qianchao Wang, Peng Sha, Leena Heistrene, Yuxuan Ding, Yaping Du
https://arxiv.org/abs/2506.00858

Interpretable Spatio-Temporal Features Extraction based Industrial Process Modeling and Monitoring by Soft Sensor
Data-driven soft sensors have been widely applied in complex industrial processes. However, the interpretable spatio-temporal features extraction by soft sensors remains a challenge. In this light, this work introduces a novel method termed spatio-temporal consistent and interpretable model (STCIM). First, temporal and spatial features are captured and aligned by a far topological spatio-temporal consistency extraction block. Then, the features are mapped into an interpretable latent space for …

Numerical simulation of oscillatory magnetic reconnection modulated by solar convective motions
Yifu Wang, Lei Ni, Guanchong Cheng, Jialiang Hu, Yuhao Chen, Abdullah Zafar
https://arxiv.org/abs/2505.24335

Numerical simulation of oscillatory magnetic reconnection modulated by solar convective motions
Oscillatory magnetic reconnection is a periodic magnetic reconnection process, during which the current sheet's orientation and the magnetic connections change periodically. This periodic variation is generally considered to originate from the magnetic reconnection itself rather than from external driving processes. We conduct 2.5-dimensional radiative magnetohydrodynamic simulations to investigate the emergence of a magnetic flux tube from the convection zone into the lower corona, where the e…

Overcoming Data Scarcity in Scanning Tunnelling Microscopy Image Segmentation
Nikola L. Kolev, Max Trouton, Filippo Federici Canova, Geoff Thornton, David Z. Gao, Neil J. Curson, Taylor J. Z. Stock
https://arxiv.org/abs/2506.01678

Overcoming Data Scarcity in Scanning Tunnelling Microscopy Image Segmentation
Scanning tunnelling microscopy (STM) is a powerful technique for imaging surfaces with atomic resolution, providing insight into physical and chemical processes at the level of single atoms and molecules. A regular task of STM image analysis is the identification and labelling of features of interest against a uniform background. Performing this manually is a labour-intensive task, requiring significant human effort. To reduce this burden, we propose an automated approach to the segmentation of…

This https://arxiv.org/abs/2501.06125 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_mat…

Low-rank variance reduction for uncertain radiative transfer with control variates
The radiative transfer equation models various physical processes ranging from plasma simulations to radiation therapy. In practice, these phenomena are often subject to uncertainties. Modeling and propagating these uncertainties requires accurate and efficient solvers for the radiative transfer equations. Due to the equation's high-dimensional phase space, fine-grid solutions of the radiative transfer equation are computationally expensive and memory-intensive. In recent years, dynamical low-r…

This https://arxiv.org/abs/2502.09506 has been replaced.
initial toot: https://mastoxiv.page/@…

Journey from the Wilson exact RG towards the Wegner-Morris Fokker-Planck RG and the Carosso field-coarsening via Langevin stochastic processes
Within the Wilson RG of 'incomplete integration' as a function of the effective RG-time $t$, the non-linear differential RG-flow for the energy $E_t[ϕ(.)]$ translates for the probability distribution $P_t[ϕ(.)] \sim e^{- E_t[ϕ(.)]} $ into the linear Fokker-Planck RG-flow associated to independent non-identical Ornstein-Uhlenbeck processes for the Fourier modes. The corresponding Langevin stochastic differential equations for the real-space field $ϕ_t(\vec x)$ have been recently interpreted …

Rules, agents and order
Amalia Puente, Diego Radillo-Ochoa, C. A. Terrero-Escalante
https://arxiv.org/abs/2505.23985 https://arxiv.or…

Rules, agents and order
Complex systems often exhibit highly structured network topologies that reflect functional constraints. In this work, we investigate how, under varying combinations of system-wide selection rules and special agents, different classes of random processes give rise to global order, with a focus restricted to finite-size networks. Using the large-$N$ Erdos-Renyi model as a null baseline, we contrast purely random link-adding processes with goal-directed dynamics, including variants of the chip-fir…

Emergent Dynamics of Active Systems on Curved Environments
Euan D. Mackay, Giulia Janzen, D. A. Matoz Fernandez, Rastko Sknepnek
https://arxiv.org/abs/2505.24730

Emergent Dynamics of Active Systems on Curved Environments
Curvature plays a central role in the proper function of many biological processes. With active matter being a standard framework for understanding many aspects of the physics of life, it is natural to ask what effect curvature has on the collective behaviour of active matter. In this paper, we use the classical theory of surfaces to explore the active motion of self-propelled agents confined to move on a smooth curved two-dimensional surface embedded in Euclidean space. Even without interactio…

This https://arxiv.org/abs/2411.07064 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_mat…

Rigorous enclosure of Lyapunov exponents of stochastic flows
We develop a powerful and general method to provide rigorous and accurate upper and lower bounds for Lyapunov exponents of stochastic flows. Our approach is based on computer-assisted tools, the adjoint method and established results on the ergodicity of diffusion processes. We do not require any structural assumptions on the stochastic system and work under mild hypoellipticity conditions and outside of perturbative regimes. Therefore, our method allows for the treatment of systems that were s…

This https://arxiv.org/abs/2502.06483 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_…

Sunrise III: Overview of Observatory and Instruments
In July 2024, Sunrise completed its third successful science flight. The Sunrise III observatory had been upgraded significantly after the two previous successful flights in 2009 and 2013. Three completely new instruments focus on the small-scale physical processes and their complex interaction from the deepest observable layers in the photosphere up to chromospheric heights. Previously poorly explored spectral regions and lines are exploited to paint a three-dimensional picture of the solar at…

This https://arxiv.org/abs/2504.21578 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_qbi…

Glucagon and insulin production in pancreatic cells modeled using Petri nets and Boolean networks
Diabetes is a civilization chronic disease characterized by a constant elevated concentration of glucose in the blood. Many processes are involved in the glucose regulation, and their interactions are very complex. To better understand those processes we set ourselves a goal to create a Petri net model of the glucose regulation in the whole body. So far we have managed to create a model of glycolysis and synthesis of glucose in the liver, and the general overview models of the glucose regulatio…

This https://arxiv.org/abs/2405.03536 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_csLO_…

Extensional and Non-extensional Functions as Processes
Following Milner's seminal paper, the representation of functions as processes has received considerable attention. For pure $λ$-calculus, the process representations yield (at best) non-extensional $λ$-theories (i.e., $β$ rule holds, whereas $η$ does not). In the paper, we study how to obtain extensional representations, and how to move between extensional and non-extensional representations. Using Internal $π$, $\mathrm{I}π$ (a subset of the $π$-calculus in which all outputs are boun…

A Quantum-Inspired Conceptual Model of Collective Subjective Evaluation via Bloch Sphere Dynamics and Like-Polarization
Bumned Soodchomshom
https://arxiv.org/abs/2506.01847

A Quantum-Inspired Conceptual Model of Collective Subjective Evaluation via Bloch Sphere Dynamics and Like-Polarization
We propose a conceptual quantum-inspired model to describe subjective evaluation processes such as taste testing or consumer preference scoring-through the continuous time evolution of cognitive states represented on the Bloch sphere. Unlike conventional quantum cognition models that rely on projective measurements and state collapse, our framework treats evaluation as a weak or generalized measurement, preserving quantum coherence during the act of judgment. The mental state of preference is m…

Synergistic motifs in linear Gaussian systems
Enrico Caprioglio, Luc Berthouze
https://arxiv.org/abs/2505.24686 https://arxiv.org/pdf…

Synergistic motifs in linear Gaussian systems
Higher-order interdependencies are central features of complex systems, yet a mechanistic explanation for their emergence remains elusive. For linear Gaussian systems of arbitrary dimension, we derive an expression for synergy-dominance in terms of signed network motifs in the system's correlation matrix. We prove that antibalanced correlational structures ensure synergy-dominance and further show that antibalanced triads in the dyadic interaction matrix of Ornstein-Uhlenbeck processes are nece…

This https://arxiv.org/abs/2505.22623 has been replaced.
initial toot: https://mastoxiv.page/@ar…

A theory for diffusion-controlled reactions within nonequilibrium steady-states
We study diffusion-controlled processes in nonequilibrium steady-states, where standard rate theory assumptions break down. Using transition path theory, we generalize the relations between reactive probability fluxes and measures of the rate of the reaction. Stochastic thermodynamics analysis reveals how work constrains the enhancement of rates relative to their equilibrium values. An analytically solvable ion-pairing model under a strong electric field illustrates and validates our approach a…

This https://arxiv.org/abs/2405.14979 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_csGR_…

CraftsMan3D: High-fidelity Mesh Generation with 3D Native Generation and Interactive Geometry Refiner
We present a novel generative 3D modeling system, coined CraftsMan, which can generate high-fidelity 3D geometries with highly varied shapes, regular mesh topologies, and detailed surfaces, and, notably, allows for refining the geometry in an interactive manner. Despite the significant advancements in 3D generation, existing methods still struggle with lengthy optimization processes, irregular mesh topologies, noisy surfaces, and difficulties in accommodating user edits, consequently impeding t…

Unifying same- and different-material particle charging through stochastic scaling
Holger Grosshans, Gizem Ozler, Simon Janta\v{c}
https://arxiv.org/abs/2505.23775

Unifying same- and different-material particle charging through stochastic scaling
Triboelectric charging of insulating particles through contact is critical in diverse physical and engineering processes, from dust storms and volcanic eruptions to industrial powder handling. However, repeated experiments revealed counterintuitive charge patterns, including variable impact charge under identical conditions, charge sign reversal with repeated impacts, and bipolar charging of differently sized particles. Existing computational models cannot predict these patterns; they either re…

Information-Theoretical Measures for Developmental Cell-Fate Proportioning Processes
Michael A. Ramirez-Sierra, Thomas R. Sokolowski
https://arxiv.org/abs/2505.23659

Information-Theoretical Measures for Developmental Cell-Fate Proportioning Processes
Self-organization is a fundamental process of complex biological systems, particularly during the early stages of development. In the mammalian embryo, blastocyst formation exemplifies a self-organized system, involving the correct spatio-temporal segregation of three distinct cell fates: trophectoderm (TE), epiblast (EPI), and primitive endoderm (PRE). Despite the significance of this class of processes, quantifying the information content of self-organizing patterning systems remains challeng…

Sleep Brain and Cardiac Activity Predict Cognitive Flexibility and Conceptual Reasoning Using Deep Learning
Boshra Khajehpiri, Eric Granger, Massimiliano de Zambotti, Fiona C. Baker, Mohamad Forouzanfar
https://arxiv.org/abs/2506.00279

Sleep Brain and Cardiac Activity Predict Cognitive Flexibility and Conceptual Reasoning Using Deep Learning
Despite extensive research on the relationship between sleep and cognition, the connection between sleep microstructure and human performance across specific cognitive domains remains underexplored. This study investigates whether deep learning models can predict executive functions, particularly cognitive adaptability and conceptual reasoning from physiological processes during a night's sleep. To address this, we introduce CogPSGFormer, a multi-scale convolutional-transformer model designed t…

Non-Gaussian enhancement of precision in quantum batteries
Beatriz Polo, Federico Centrone
https://arxiv.org/abs/2505.24604 https://a…

Non-Gaussian enhancement of precision in quantum batteries
We investigate the fundamental limits of converting light into useful work, with a focus on the role of quantum resources in energy harvesting processes. Specifically, we analyze how quantum coherence, non-Gaussianity, and entanglement affect the fluctuations in the energy output of bosonic quantum batteries. Our findings reveal potential pathways to enhance the efficiency and stability of energy extraction from quantum batteries, with implications for the development of quantum thermal machine…

The intertwining property for $\beta $-Laguerre processes and integral operators for Jack polynomials
Yosuke Kawamato, Genki Shibukawa
https://arxiv.org/abs/2505.23139

The intertwining property for $β$-Laguerre processes and integral operators for Jack polynomials
The aim of this paper is to study intertwining relations for Laguerre process with inverse temperature $β\ge 1$ and parameter $α>-1$. We introduce a Markov kernel that depends on both $β$ and $ α$, and establish new intertwining relations for the $β$-Laguerre processes using this kernel. A key observation is that Jack symmetric polynomials are eigenfunctions of our Markov kernel, which allows us to apply a method established by Ramanan and Shkolnikov. Additionally, as a by-product, we deri…

This https://arxiv.org/abs/2405.20912 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_eco…

A Branch-Price-Cut-And-Switch Approach for Optimizing Team Formation and Routing for Airport Baggage Handling Tasks with Stochastic Travel Times
In airport operations, optimally using dedicated personnel for baggage handling tasks plays a crucial role in the design of resource-efficient processes. Teams of workers with different qualifications must be formed, and loading or unloading tasks must be assigned to them. Each task has a time window within which it can be started and should be finished. Violating these temporal restrictions incurs severe financial penalties for the operator. In practice, various components of this process are …

This https://arxiv.org/abs/2502.13697 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_mat…

Linear programming for finite-horizon vector-valued Markov decision processes
We propose a vector linear programming formulation for a non-stationary, finite-horizon Markov decision process with vector-valued rewards. Pareto efficient policies are shown to correspond to efficient solutions of the linear program, and vector linear programming theory allows us to fully characterize deterministic efficient policies. An algorithm for enumerating all efficient deterministic policies is presented then tested numerically in an engineering application.

Few-Shot Speech Deepfake Detection Adaptation with Gaussian Processes
Neta Glazer, David Chernin, Idan Achituve, Sharon Gannot, Ethan Fetaya
https://arxiv.org/abs/2505.23619

Few-Shot Speech Deepfake Detection Adaptation with Gaussian Processes
Recent advancements in Text-to-Speech (TTS) models, particularly in voice cloning, have intensified the demand for adaptable and efficient deepfake detection methods. As TTS systems continue to evolve, detection models must be able to efficiently adapt to previously unseen generation models with minimal data. This paper introduces ADD-GP, a few-shot adaptive framework based on a Gaussian Process (GP) classifier for Audio Deepfake Detection (ADD). We show how the combination of a powerful deep e…

TumorGen: Boundary-Aware Tumor-Mask Synthesis with Rectified Flow Matching
Shengyuan Liu, Wenting Chen, Boyun Zheng, Wentao Pan, Xiang Li, Yixuan Yuan
https://arxiv.org/abs/2505.24687

TumorGen: Boundary-Aware Tumor-Mask Synthesis with Rectified Flow Matching
Tumor data synthesis offers a promising solution to the shortage of annotated medical datasets. However, current approaches either limit tumor diversity by using predefined masks or employ computationally expensive two-stage processes with multiple denoising steps, causing computational inefficiency. Additionally, these methods typically rely on binary masks that fail to capture the gradual transitions characteristic of tumor boundaries. We present TumorGen, a novel Boundary-Aware Tumor-Mask Sy…

Emergent symmetry in a two-Higgs-doublet model from quantum information and magic
Giorgio Busoni, John Gargalionis, Ewan N. V. Wallace, Martin J. White
https://arxiv.org/abs/2506.01314

Emergent symmetry in a two-Higgs-doublet model from quantum information and magic
Studies of scattering processes in scalar models with two Higgs doublets have recently hinted at a connection between the absence of flavour-space entanglement in $Φ^+Φ^0$ scattering and an emergent $\mathrm{SO}(8)$ symmetry in the scalar potential. We extend the analysis to all scattering channels with two particles in the external states by treating the process as a four-qubit system in the weak isospin and flavour subspaces of the $2$-particle state. We work with a generic quantum informat…

#Anthropic #opensources circuit tracing method to reveal how large language models make decisions internally
🔍 Generate attribution graphs showing step-by-step model reasoning processes
🧵👇#research

Something here touching on people modelling systems based on a simplified abstraction. (aka why seemingly simple government processes are surprisingly expensive to run.)
https://newsletter.danhon.com/archive/s19e11-your-model-is-naive-and-its-not-the/…

s19e11: Your Model is Naive and it’s Not The Territory
0.0 Context Setting Friday, May 30, at the Code for America Summit in a hotel in Washington, D.C. I am in, fittingly, a hallway. I am also jetlagged. There...

Enhancing Spatio-Temporal Resolution of Process-Based Life Cycle Analysis with Model-Based Systems Engineering \& Hetero-functional Graph Theory
Niraj Gohil, Nawshad Haque, Amgad Elgowainy, Amro M. Farid
https://arxiv.org/abs/2506.00230

Enhancing Spatio-Temporal Resolution of Process-Based Life Cycle Analysis with Model-Based Systems Engineering \& Hetero-functional Graph Theory
Life cycle analysis (LCA) has emerged as a vital tool for assessing the environmental impacts of products, processes, and systems throughout their entire lifecycle. It provides a systematic approach to quantifying resource consumption, emissions, and waste, enabling industries, researchers, and policymakers to identify hotspots for sustainability improvements. By providing a comprehensive assessment of systems, from raw material extraction to end-of-life disposal, LCA facilitates the developmen…

Decoupling Local Electrostatic Potential and Temperature-Driven Atomistic Forming Mechanisms in TaOx/HfO2-Based ReRAMs using Reactive Molecular Dynamics Simulations
Simanta Lahkar, Valeria Bragaglia, Behnaz Bagheri, Donato Francesco Falcone, Matteo Galetta, Marilyne Sousa, Aida Todri-Sanial
https://arxiv.org/abs/2505.24468

Decoupling Local Electrostatic Potential and Temperature-Driven Atomistic Forming Mechanisms in TaOx/HfO2-Based ReRAMs using Reactive Molecular Dynamics Simulations
Resistive random access memories (ReRAMs) with a bilayer TaOx/HfO2 stack structure have been shown to possess uniquely promising resistive switching characteristics. However, the key atomistic forming mechanisms and the physical processes that govern the behavior of this kind of device remain to be clarified. Here, we present a detailed analysis of the physical mechanisms underlying its forming at the atomistic level through molecular dynamics (MD) simulations using an extended charge equilibra…

Correlated emission of electron-current waves
Shane P. Kelly, Eric Kleinherbers, Yanyan Zhu, Yaroslav Tserkovnyak
https://arxiv.org/abs/2505.24052 https://…

Correlated emission of electron-current waves
Correlated emission of light offer a potential avenue for entanglement generation between atomic spins, with potential application for sensing and quantum memory. In this work, we investigate the conditions for the correlated emission by color centers into an electronic bath of conduction electrons. Unlike emission into bosonic modes, electrons can absorb energy via two-particle processes across a large range of length scales. We find that two length scales are particularly relevant: one set by…

A Time-resolved High-resolution Spectroscopic Analysis of Ionized Calcium and Dynamical Processes in the Ultra-hot Jupiter HAT-P-70 b: #GHOST Spies Ultra-hot Jupiter With Ultra-fast Winds: https://noirlab.edu/public/blog/ghost-spies-jupiter/ - study of HAT-P-70 b’s atmosphere highlights the spectacular spectroscopic abilities of Gemini South’s GHOST.

A Simple Iterative Approach for Constant Chemical Potential Simulations at Interfaces
Ademola Soyemi, Khagendra Baral, Tibor Szilvasi
https://arxiv.org/abs/2506.01050

A Simple Iterative Approach for Constant Chemical Potential Simulations at Interfaces
Chemical potential of species in solution is essential for understanding various chemical processes at interfaces. Molecular dynamics (MD) simulations, constrained by fixed compositions, cannot satisfy a constant chemical potential condition as solute species can migrate to the interface and deplete the bulk due to solute-interface interactions. In this study, we introduce a simple and computationally efficient approach named iterative constant chemical potential molecular dynamics (iCuMD) simu…

[2025-05-02 Fri (UTC), no new articles found for q-bio.SC Subcellular Processes]
#toXiv_bot_toot

Observability of modified threshold behavior near unitarity
Michael D. Higgins, J. Golak, R. Skibinski, K. Topolnicki, H. Witala, H. Kamada, Chris H. Greene
https://arxiv.org/abs/2505.24569

Observability of modified threshold behavior near unitarity
A number of recent references have pointed out that an N-particle system having short-range interactions at S-wave and/or P-wave unitarity can exhibit modified threshold behavior for various reactive processes. But the question of how close to unitarity one must get in order to observe such modifications has not been addressed. The present study quantities this question by treating cases involving 3- or 4-neutrons, at the physical value of the neutron-neutron singlet scattering length a and at …

Simulating Complex Crossectional and Longitudinal Data using the simDAG R Package
Robin Denz, Nina Timmesfeld
https://arxiv.org/abs/2506.01498 https://

Simulating Complex Crossectional and Longitudinal Data using the simDAG R Package
Generating artificial data is a crucial step when performing Monte-Carlo simulation studies. Depending on the planned study, complex data generation processes (DGP) containing multiple, possibly time-varying, variables with various forms of dependencies and data types may be required. Simulating data from such DGP may therefore become a difficult and time-consuming endeavor. The simDAG R package offers a standardized approach to generate data from simple and complex DGP based on the definition …

Coarse-graining dynamics to maximize irreversibility
Qiwei Yu, Matthew P. Leighton, Christopher W. Lynn
https://arxiv.org/abs/2506.01909 https://

Coarse-graining dynamics to maximize irreversibility
In many far-from-equilibrium biological systems, energy injected by irreversible processes at microscopic scales propagates to larger scales to fulfill important biological functions. But given dissipative dynamics at the microscale, how much irreversibility can persist at the macroscale? Here, we propose a model-free coarse-graining procedure that merges microscopic states to minimize the amount of lost irreversibility. Beginning with dynamical measurements, this procedure produces coarse-grai…

This https://arxiv.org/abs/2502.11216 has been replaced.
initial toot: https://mastoxiv.page/@a…

Exploring nonlinearities in a positive ion-negative ion (PINI) plasma: can other processes mimic debris-induced effects?
In this work, an analysis of nonlinear waves and structures induced by an external charged debris in a positive ion-negative ion (PINI) plasma is presented. The results obtained are compared with findings from available experiments involving PINI plasma. The process of formation of different nonlinear structures is examined theoretically through a forced Korteweg-de Vries (fKdV) equation, which is also verified with a multi-fluid flux-corrected transport simulation code mFCT. Various processes …

Generative Social Choice: The Next Generation
Niclas Boehmer, Sara Fish, Ariel D. Procaccia
https://arxiv.org/abs/2505.22939 https://…

Generative Social Choice: The Next Generation
A key task in certain democratic processes is to produce a concise slate of statements that proportionally represents the full spectrum of user opinions. This task is similar to committee elections, but unlike traditional settings, the candidate set comprises all possible statements of varying lengths, and so it can only be accessed through specific queries. Combining social choice and large language models, prior work has approached this challenge through a framework of generative social choic…

This https://arxiv.org/abs/2504.09851 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_csAR_…

Carbon-Efficient 3D DNN Acceleration: Optimizing Performance and Sustainability
As Deep Neural Networks (DNNs) continue to drive advancements in artificial intelligence, the design of hardware accelerators faces growing concerns over embodied carbon footprint due to complex fabrication processes. 3D integration improves performance but introduces sustainability challenges, making carbon-aware optimization essential. In this work, we propose a carbon-efficient design methodology for 3D DNN accelerators, leveraging approximate computing and genetic algorithm-based design spa…

Topological Adaptive Least Mean Squares Algorithms over Simplicial Complexes
Lorenzo Marinucci, Claudio Battiloro, Paolo Di Lorenzo
https://arxiv.org/abs/2505.23160

Topological Adaptive Least Mean Squares Algorithms over Simplicial Complexes
This paper introduces a novel adaptive framework for processing dynamic flow signals over simplicial complexes, extending classical least-mean-squares (LMS) methods to high-order topological domains. Building on discrete Hodge theory, we present a topological LMS algorithm that efficiently processes streaming signals observed over time-varying edge subsets. We provide a detailed stochastic analysis of the algorithm, deriving its stability conditions, steady-state mean-square-error, and converge…

This https://arxiv.org/abs/2409.13412 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_hepp…

Tree-level unitarity constraints on heavy neutral leptons
Heavy neutral leptons (HNLs) can explain the origin of neutrino masses and oscillations over a wide range of masses. Direct experimental probes of HNLs become unfeasible for masses significantly above the electroweak scale.Consequently, the strongest limits arise from the non-observation of charged lepton flavor-violating processes induced by HNLs at loop level.Counter-intuitively, these bounds tighten as the HNL mass increases, an effect that persists within the perturbative regime. This wor…

Multicomponent Linear Transport in the Absence of Local Equilibrium
Yu-Jen Chiu, Eric M. Weiner, Ahmad K. Omar
https://arxiv.org/abs/2505.23906 https://

Multicomponent Linear Transport in the Absence of Local Equilibrium
The linear laws of transport phenomena are central in our description of irreversible processes in systems across the physical sciences. Linear irreversible thermodynamics allows for the identification of the underlying forces driving transport and the structure of the relevant transport coefficients for systems that are locally in equilibrium. Increasingly, linear relations are found to describe transport in systems in which a local equilibrium hypothesis is unlikely to hold. Here, we derive a…

This https://arxiv.org/abs/2408.04864 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_…

The evolving role of astrophysical modelling in dark matter halo relaxation response
We study the change in the radial distribution of dark matter within haloes in response to baryonic astrophysical processes in galaxies at different epochs, investigating the role of astrophysical modeling in cosmological hydrodynamic simulations in producing the response. We find that the linear quasi-adiabatic relaxation with additional dependence on the halo-centric distance provides a good description not only at $z=0$, but also at an earlier epoch ($z=1$) in the IllustrisTNG simulation sui…

Translation of Enterprise Architecture Concept to Facilitate Digital Transformation Initiatives in Vietnam: Processes, Mechanisms and Impacts
Duong Dang, Quang Bui
https://arxiv.org/abs/2505.20247

Translation of Enterprise Architecture Concept to Facilitate Digital Transformation Initiatives in Vietnam: Processes, Mechanisms and Impacts
Governments around the world have increasingly adopted digital transformation (DT) initiatives to increase their strategic competitiveness in the global market. To support successful DT, governments have to introduce new governance logics and revise IT strategies to facilitate DT initiatives. In this study, we report a case study of how Enterprise Architecture (EA) concepts were introduced and translated into practices in Vietnamese government agencies over a span of 15 years. This translation …

An Efficient Implementation of Guard-Based Synchronization for an Object-Oriented Programming Language
Shucai Yao (Huawai Technologies Canada), Emil Sekerinski (McMaster University)
https://arxiv.org/abs/2505.20850

An Efficient Implementation of Guard-Based Synchronization for an Object-Oriented Programming Language
In the shared variable model of concurrency, guarded atomic actions restrict the possible interference between processes by regions of atomic execution. The guard specifies the condition for entering an atomic region. That is a convenient model for the specification and verification of concurrent programs, but has eschewed efficient execution so far. This article shows how guarded atomic actions, when attached to objects, can be implemented highly efficiently using a combination of coroutines, …

Optical Photometric Monitoring of the Blazar OT 355 and Local Standard Stars' Calibration
R. Bachev, Tushar Tripathi, Alok C. Gupta, A. Kurtenkov, Y. Nikolov, A. Strigachev, S. Boeva, G. Latev, B. Spassov, M. Minev, E. Ovcharov, W. -X. Yang, Yi Liu, J. -H. Fan
https://arxiv.org/abs/2505.23677…

Optical Photometric Monitoring of the Blazar OT 355 and Local Standard Stars' Calibration
OT 355 (4FGL J1734.3 + 3858) is a relatively rarely studied but highly variable, moderate-redshift (z = 0.975) flat-spectrum radio quasar (blazar). With this work, we aim to study its optical variability on different timescales, which can help us to better understand the physical processes in relativistic jets operating in blazar-type active galactic nuclei. OT 355 was observed in four colors (BVRI) during 41 nights between 2017 and 2023 using three 1 and 2 m class telescopes. The object was al…

Origin of compact exoplanetary systems during disk infall
Raluca Rufu, Robin M. Canup
https://arxiv.org/abs/2505.22806 https://arxiv.…

Origin of compact exoplanetary systems during disk infall
Exoplanetary systems that contain multiple planets on short-period orbits appear to be prevalent in the current observed exoplanetary population, yet the processes that give rise to such configurations remain poorly understood. A common prior assumption is that planetary accretion commences after the infall of gas and solids to the circumstellar disk ended. However, observational evidence indicates that accretion may begin earlier. We propose that compact systems are surviving remnants of plane…

This https://arxiv.org/abs/2504.07477 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_csIT_…

Analog Computing for Signal Processing and Communications -- Part II: Toward Gigantic MIMO Beamforming
Analog-domain operations offer a promising solution to accelerating signal processing and enabling future multiple-input multiple-output (MIMO) communications with thousands of antennas. In Part I of this paper, we have introduced a microwave linear analog computer (MiLAC) as an analog computer that processes microwave signals linearly, demonstrating its potential to reduce the computational complexity of specific signal processing tasks. In Part II of this paper, we extend these benefits to wi…

The spectral energy distribution of extreme population A quasars
Karla Garnica, Deborah Dultzin, Paola Marziani, Swayamtrupta Panda
https://arxiv.org/abs/2505.22912

The spectral energy distribution of extreme population A quasars
Knowledge of the broad-band active galactic nuclei (AGN) spectral energy distribution (SED) that ionizes the gas-rich broad emission line region is key to understanding the various radiative processes at play and their importance that eventually leads to the emission line formation. We modeled a spectral energy distribution for highly accreting quasars, also known as extreme population A sources, based mainly on observational data available in astronomical databases, and on accretion disk model…

This https://arxiv.org/abs/2501.01797 has been replaced.
initial toot: https://mastoxiv.page/@arX…

Ohm's law, Joule heat, and Planckian dissipation
Electric current generation and its dissipation are important physical processes. It ranges from the one follows the Ohm's law to superconductivity. Recently, it has been shown that the gradient of the chemical potential force arises from the time-component of the Berry connection from many-electron wave functions, and we consider its importance for the electric current conduction in this work. We first show that it rectifies the odd explanation in Joule heating by electric current in a metalli…

Electron and positron channeling and photon emission processes in boron doped periodically bent diamond
Andrei V. Korol, Andrey V. Solov'yov
https://arxiv.org/abs/2505.20037

Electron and positron channeling and photon emission processes in boron doped periodically bent diamond
In this paper, theoretical and numerical analyses are conducted of the profiles of the planar (-110) crystallographic direction in the diamond layer doped with boron atoms. The planar profiles for periodic doping following several ideal dependencies of the boron concentration on the distance in the crystalline medium. Numerical simulations of the channeling and photon emission processes have been carried out for 855 MeV electron and 530 MeV positron beams incident on boron-doped diamond with a …

Effective flows across diffusio-phoretic membranes
Kevin Wittkowski, Pier Giuseppe Ledda, Edoardo Carlo Giordano, Fran\c{c}ois Gallaire, Giuseppe Antonio Zampogna
https://arxiv.org/abs/2505.22197

Effective flows across diffusio-phoretic membranes
Flows enabled by phoretic mechanisms are of significant interest in several biological and biomedical processes, such as bacterial motion and targeted drug delivery. Here, we develop a homogenization-based macroscopic boundary condition which describes the effective flow across a diffusiophoretic microstructured membrane, where the interaction between the membrane walls and the solute particles is modeled via a potential-approach. We consider two cases where potential variations occur (i) at th…

Deep learning of thermodynamic laws from microscopic dynamics
Hiroto Kuroyanagi, Tatsuro Yuge
https://arxiv.org/abs/2506.01506 https://

Deep learning of thermodynamic laws from microscopic dynamics
We numerically show that a deep neural network (DNN) can learn macroscopic thermodynamic laws purely from microscopic data. Using molecular dynamics simulations, we generate the data of snapshot images of gas particles undergoing adiabatic processes. We train a DNN to determine the temporal order of input image pairs. We observe that the trained network induces an order relation between states consistent with adiabatic accessibility, satisfying the axioms of thermodynamics. Furthermore, the int…

I'm supervising a group of six 3rd year BSc students in a project inspired by the paper "Responsibility Under Uncertainty: Which Climate Decisions Matter Most?" https://link.springer.com/article/10.1007/s10666-022-09867-w
The project description is availa…

Expressivity of bisimulation pseudometrics over analytic state spaces
Daniel Luckhardt, Harsh Beohar, Clemens Kupke
https://arxiv.org/abs/2505.23635 https:…

Expressivity of bisimulation pseudometrics over analytic state spaces
A Markov decision process (MDP) is a state-based dynamical system capable of describing probabilistic behaviour with rewards. In this paper, we view MDPs as coalgebras living in the category of analytic spaces, a very general class of measurable spaces. Note that analytic spaces were already studied in the literature on labelled Markov processes and bisimulation relations. Our results are twofold. First, we define bisimulation pseudometrics over such coalgebras using the framework of fibrations…

Network classification through random walks
Gonzalo Travieso, Joao Merenda, Odemir M. Bruno
https://arxiv.org/abs/2505.21706 https://…

Network classification through random walks
Network models have been widely used to study diverse systems and analyze their dynamic behaviors. Given the structural variability of networks, an intriguing question arises: Can we infer the type of system represented by a network based on its structure? This classification problem involves extracting relevant features from the network. Existing literature has proposed various methods that combine structural measurements and dynamical processes for feature extraction. In this study, we introd…

[2025-06-02 Mon (UTC), no new articles found for q-bio.SC Subcellular Processes]
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Learning-Based Robust Fixed-Time Terminal Sliding Mode Control
Chaimae El Mortajinea, Moussa Labbadib, Adnane Saoudc, Mostafa Bouzia
https://arxiv.org/abs/2505.22827

Learning-Based Robust Fixed-Time Terminal Sliding Mode Control
In this paper, we develop and analyze an integral fixed-time sliding mode control method for a scenario in which the system model is only partially known, utilizing Gaussian processes. We present two theorems on fixed-time convergence. The first theorem addresses the fully known system model, while the second considers situations where the system's drift is approximated utilizing Gaussian processes (GP) for approximating unknown dynamics. Both theorems establish the global fixed-time stability …

This https://arxiv.org/abs/2307.15239 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_qbi…

Distinctive pupil and microsaccade-rate signatures in self-recognition
Pupil dynamics and fixational eye movements are primarily involuntary processes that actively support visual perception during fixations. Both measures are known to be sensitive to ongoing cognitive and affective processing. In a visual fixation experiment (N=116) we demonstrate that self-recognition, familiar faces, and unfamiliar faces elicit specific responses in pupil dynamics and microsaccade rate. First, the pupil response comprises an immediate pupil constriction followed by a dilation i…

This https://arxiv.org/abs/2306.06407 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_qbi…

Effect of the degree of an initial mutant in Moran processes in structured populations
We study the effect of the mutant's degree on the fixation probability, extinction and fixation times, in the Moran process on Erdös-Rényi and Barabási-Albert graphs. We performed stochastic simulations and use mean-field type approximations to obtain analytical formulas. We showed that the initial placement of a mutant has a significant impact on the fixation probability and extinction time, while it has no effect on the fixation time. In both types of graphs, an increase in the degree of a…

Good Morning Karlsruhe! Day 02 of the Effekte Science Festival with our booth presenting the Wiedergutmachung project, a huge digitalisation effort on historical archival documents on the recompensation processes of nationalsocialist injustice
@… @…

Just read Plantin & Thomer's article, on the changes Figshare for Institutions introduces into the provision & organization of data-management labor in libraries. The authors worry that this commercial SaaS platform for institutional & data repositories, while fulfilling a number of library needs, will have detrimental effects. While it's a good piece of infrastructure-studies research, I question some of the analysis & conclusions.

This https://arxiv.org/abs/2411.05559 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_qu…

Quantum processes as thermodynamic resources: the role of non-Markovianity
Quantum thermodynamics studies how quantum systems and operations may be exploited as sources of work to perform useful thermodynamic tasks. In real-world conditions, the evolution of open quantum systems typically displays memory effects, resulting in a non-Markovian dynamics. The associated information backflow has been observed to provide advantage in certain thermodynamic tasks. However, a general operational connection between non-Markovianity and thermodynamics in the quantum regime has r…

My Bartlett School of Architecture colleague Nina Vollenbroker is organising a session on 'Environments of Disability' at this year's AHRA conference in Liverpool (22-24 Nov 2025), based on the premise that architectural processes are central producers of disability
Abstracts are due 2nd June, call for papers and more info:

A validated coupled three-dimensional hydrodynamic and spectral wind-wave model for the western north Atlantic Ocean
Maria Venolia, Reza Marsooli, Jaime R. Calzada
https://arxiv.org/abs/2505.18803

A validated coupled three-dimensional hydrodynamic and spectral wind-wave model for the western north Atlantic Ocean
Wind-wave and ocean current interactions affect critical coastal and oceanic processes, yet modeling these interactions presents significant challenges. The western North Atlantic Ocean provides an ideal test environment for coupled hydrodynamics and wind wave models, thanks to its energetic surface currents such as the Gulf Stream. This study evaluates a high-resolution coupled SCHISM WWM III model, utilizing NOAA's 'STOFS-3D-Atlantic' computational mesh, while incorporating three-dimensional …

Effect of positronium on the $\gamma$-ray spectra and energy deposition in Type Ia supernovae
Anirban Dutta, Andrew Fullard, Wolfgang Kerzendorf, J. T. O'Brien, Cecelia Powers, Stuart A Sim, Andreas Fl\"ors, Or Graur
https://arxiv.org/abs/2505.22992

Effect of positronium on the $γ$-ray spectra and energy deposition in Type Ia supernovae
Type Ia supernovae (SNe Ia) are powered by the radioactive decay of isotopes such as $^{56}$Ni and $^{56}$Co, making their $γ$-ray spectra useful probes of the explosion mechanism and ejecta structure. Accurate interpretation of $γ$-ray observables, including line ratios and continuum fluxes, requires a detailed understanding of the microphysical processes that shape the spectra. One such process is positronium formation during electron-positron annihilation, which can redistribute flux from …

This https://arxiv.org/abs/2504.11021 has been replaced.
initial toot: https://mastoxiv.page/@arXi…

Tunable self-emulsification via viscoelastic control of Marangoni-driven interfacial instabilities
Interfacial instabilities in multicomponent fluidic systems are widespread in nature and in industrial processes, yet controlling their dynamics remains a challenge. Here, we present a strategy to actively tune Marangoni-driven self-emulsification at liquid-liquid interfaces by harnessing fluid viscoelasticity. When a water-alcohol droplet spreads on an oil bath, a radial surface tension gradient induced by selective alcohol evaporation drives an interfacial instability, leading to the spontane…

This https://arxiv.org/abs/2412.03662 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_…

The Growth of Galaxy Stellar Haloes Over $0.2 \leq z \leq 1.1$
Galaxies are predicted to assemble their stellar haloes through the accretion of stellar material from interactions with their cosmic environment. Observations that trace stellar halo buildup probe the processes that drive galaxy size and stellar mass growth. We investigate stellar halo assembly over $0.2 \leq z \leq 1.1$ in a mass-complete ($M_{\star} \geq 10^{9.5}M_{\odot}$) sample of 242,456 star-forming and 88,421 quiescent galaxies (SFGs and QGs) from the CLAUDS and HSC-SSP surveys. We ext…

Charting circumstellar chemistry of carbon-rich asymptotic giant branch stars. II. Abundances and spatial distributions of CS
R. Unnikrishnan, M. Andriantsaralaza, E. De Beck, L. -{\AA}. Nyman, H. Olofsson, W. H. T. Vlemmings, M. Maercker, M. Van de Sande, T. Danilovich, T. J. Millar, S. B. Charnley, M. G. Rawlings
https://arxiv…

Charting circumstellar chemistry of carbon-rich asymptotic giant branch stars. II. Abundances and spatial distributions of CS
The circumstellar envelopes (CSEs) of asymptotic giant branch (AGB) stars harbour a rich variety of molecules and are sites of complex chemistry. Our current understanding of the circumstellar chemical processes of carbon-rich AGB stars is predominantly based on observations of a single star, IRC+10216, often regarded as an archetypical carbon star. We aim to estimate stellar and circumstellar properties for five carbon stars, and constrain their circumstellar CS abundances. This study compares…

From Signed Networks to Group Graphs
Tim S. Evans
https://arxiv.org/abs/2505.22802 https://arxiv.org/pdf/2505.22802

From Signed Networks to Group Graphs
I show that when there is a symmetry in a process defined on the nodes of a network, this can be captured by a new structure, the ``group graph'', in which group elements label the links of a network. I show that group graphs are a generalisation of signed networks which are an example of a $Z_2$ group graph. I also show that the concept of balance in signed networks can be generalised to group graphs. Finally, I show how the dynamics of processes on a consistent group graph are completely cont…

This https://arxiv.org/abs/2405.14979 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_csGR_…

CraftsMan3D: High-fidelity Mesh Generation with 3D Native Generation and Interactive Geometry Refiner
We present a novel generative 3D modeling system, coined CraftsMan, which can generate high-fidelity 3D geometries with highly varied shapes, regular mesh topologies, and detailed surfaces, and, notably, allows for refining the geometry in an interactive manner. Despite the significant advancements in 3D generation, existing methods still struggle with lengthy optimization processes, irregular mesh topologies, noisy surfaces, and difficulties in accommodating user edits, consequently impeding t…

A Descriptor Is All You Need: Accurate Machine Learning of Nonadiabatic Coupling Vectors
Jakub Martinka, Lina Zhang, Yi-Fan Hou, Miko{\l}aj Martyka, Ji\v{r}\'i Pittner, Mario Barbatti, Pavlo O. Dral
https://arxiv.org/abs/2505.23344

A Descriptor Is All You Need: Accurate Machine Learning of Nonadiabatic Coupling Vectors
Nonadiabatic couplings (NACs) play a crucial role in modeling photochemical and photophysical processes with methods such as the widely used fewest-switches surface hopping (FSSH). There is therefore a strong incentive to machine learn NACs for accelerating simulations. However, this is challenging due to NACs' vectorial, double-valued character and the singularity near a conical intersection seam. For the first time, we design NAC-specific descriptors based on our domain expertise and show tha…

This https://arxiv.org/abs/2406.17240 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_csLO_…

Pareto Fronts for Compositionally Solving String Diagrams of Parity Games
Open parity games are proposed as a compositional extension of parity games with algebraic operations, forming string diagrams of parity games. A potential application of string diagrams of parity games is to describe a large parity game with a given compositional structure and solve it efficiently as a divide-and-conquer algorithm by exploiting its compositional structure. Building on our recent progress in open Markov decision processes, we introduce Pareto fronts of open parity games, offeri…

This https://arxiv.org/abs/2505.18920 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_qbi…

Sensitivity analysis-guided model reduction of a mathematical model of pembrolizumab therapy for de novo metastatic MSI-H/dMMR colorectal cancer
Colorectal cancer (CRC) is the third most commonly diagnosed cancer worldwide and the leading cause of cancer-related deaths in adults under 55, involving a complex interplay of biological processes such as dendritic cell (DC) maturation and migration, T cell activation and proliferation, cytokine production, and T cell and natural killer (NK) cell-mediated cancer cell killing. Microsatellite instability-high (MSI-H) CRC and deficient mismatch repair (dMMR) CRC constitute 15% of all CRC, and 4%…

Emergent Quasiparticles \& Field-Tuned RIXS Spectra in a Trimerized Spin-1/2 Chain
Subhajyoti Pal, Pradeep Thakur, Ashis Kumar Nandy, Anamitra Mukherjee
https://arxiv.org/abs/2505.23208

Emergent Quasiparticles \& Field-Tuned RIXS Spectra in a Trimerized Spin-1/2 Chain
We investigate spin-flip excitations in the spin-1/2 trimer chain $\rm{Cu_3(P_2O_6OH)_2}$, featuring an antiferromagnetic exchange motif $J_1$-$J_1$-$J_2$ with $J_1 < J_2$. Using density matrix renormalization group (DMRG) simulations, we demonstrate that single-spin-flip processes induced by resonant inelastic X-ray scattering (RIXS) generate emergent gapless modes governed by the underlying trimer periodicity alongside distinct high-energy excitations. By combining exact diagonalization and r…

This https://arxiv.org/abs/2205.07214 has been replaced.
link: https://scholar.google.com/scholar?q=a

Entropy Production for Discrete-Time Markov Processes
We study the multiple definitions of the entropy production for discrete-time Markov processes in single systems and composite systems. These definitions have been studied in single systems, but less so in composite systems. With a clear distinction, we review the equivalence condition and the meaning of the multiple definitions and show that all definitions satisfy the important property for the entropy production, such as non-negativity. We also show that the inequalities between total entrop…

This https://arxiv.org/abs/2409.02172 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_…

Diverse dark matter profiles in FIRE dwarfs: black holes, cosmic rays and the cusp-core enigma
Dwarf galaxies have historically posed challenges to the cold dark matter (CDM) model and, while many of the so-called 'dwarf galaxy problems' have been mitigated by incorporating baryonic processes, the observed diversity of dwarf galaxy rotation curves remains a contentious topic. Meanwhile, the growing observational samples of active galactic nuclei (AGN) in dwarf galaxies have prompted a paradigm shift in our understanding of dwarf galaxy evolution, traditionally thought to be regulated by …

Ensemble Modeling of the Solar Wind Flow with Boundary Conditions Governed by Synchronic Photospheric Magnetograms. I. Multi-point Validation in the Inner Heliosphere
Dinesha V. Hegde (Department of Space Science, The University of Alabama in Huntsville, Huntsville, USA, Center for Space Plasma and Aeronomic Research, The University of Alabama in Huntsville, Huntsville, USA), Tae K. Kim (Center for Space Plasma and Aeronomic Research, The University of Alabama in Huntsville, Huntsville…

Ensemble Modeling of the Solar Wind Flow with Boundary Conditions Governed by Synchronic Photospheric Magnetograms. I. Multi-point Validation in the Inner Heliosphere
The solar wind (SW) is a vital component of space weather, providing a background for solar transients such as coronal mass ejections, stream interaction regions, and energetic particles propagating toward Earth. Accurate prediction of space weather events requires a precise description and thorough understanding of physical processes occurring in the ambient SW plasma. Ensemble simulations of the three-dimensional SW flow are performed using an empirically-driven magnetohydrodynamic heliospher…

This https://arxiv.org/abs/2503.18782 has been replaced.
initial toot: https://mastoxiv.page/@arXi…

Adhesion differentials control the rheology of biomimetic emulsions
Animal morphogenesis involves complex tissue deformation processes, which require tight control over tissue rheology. Yet, it remains insufficiently understood how tissue rheology results from the interplay between cellular packing and cellular forces, such as cortical tension, cell pressure, and cell-cell adhesion. Here, we follow a biomimetic approach to study this interplay, focusing on the cellular adhesion hierarchy. We mimic adhesive cells with oil droplets whose adhesion strength and spe…

[2025-05-01 Thu (UTC), no new articles found for q-bio.SC Subcellular Processes]
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Data-driven multi-agent modelling of calcium interactions in cell culture: PINN vs Regularized Least-squares
Aurora Poggi, Giuseppe Alessio D'Inverno, Hjalmar Brismar, Ozan \"Oktem, Matthieu Barreau, Kateryna Morozovska
https://arxiv.org/abs/2505.20327

Data-driven multi-agent modelling of calcium interactions in cell culture: PINN vs Regularized Least-squares
Data-driven discovery of dynamics in biological systems allows for better observation and characterization of processes, such as calcium signaling in cell culture. Recent advancements in techniques allow the exploration of previously unattainable insights of dynamical systems, such as the Sparse Identification of Non-Linear Dynamics (SINDy), overcoming the limitations of more classic methodologies. The latter requires some prior knowledge of an effective library of candidate terms, which is not…

A theory for diffusion-controlled reactions within nonequilibrium steady-states
Seokjin Moon, David T. Limmer
https://arxiv.org/abs/2505.22623 https://

A theory for diffusion-controlled reactions within nonequilibrium steady-states
We study diffusion-controlled processes in nonequilibrium steady-states, where standard rate theory assumptions break down. Using transition path theory, we generalize the relations between reactive probability fluxes and measures of the rate of the reaction. Stochastic thermodynamics analysis reveals how work constrains the enhancement of rates relative to their equilibrium values. An analytically solvable ion-pairing model under a strong electric field illustrates and validates our approach a…

Computing phylogenetic invariants for time-reversible models: from TN93 to its submodels
Marta Casanellas, Jennifer Garbett, Roser Homs, Annachiara Korchmaros, Niharika Chakrabarty Paul
https://arxiv.org/abs/2505.20526

Computing phylogenetic invariants for time-reversible models: from TN93 to its submodels
Phylogenetic invariants are equations that vanish on algebraic varieties associated with Markov processes that model molecular substitutions on phylogenetic trees. For practical applications, it is essential to understand these equations across a wide range of substitution models. Recent work has shown that, for equivariant models, phylogenetic invariants can be derived from those of the general Markov model by restricting to the linear space defined by the model (namely, the space of mixtures …

This https://arxiv.org/abs/2412.18872 has been replaced.
initial toot: https://mastoxiv.page/@arXiv_…

Proton Flux Measurement from Neutron Monitor Data Using Neural Networks
Accurate measurements of cosmic ray proton flux are essential for studying the modulation processes of cosmic rays during the solar activity cycle. A proton flux measurement method, based on ground-based neutron monitor (NM) data and deep learning techniques, is presented. After the necessary pre-processing of ground-based NM data using a convolutional neural network (CNN) model, we simulate the relationship between NM observations and proton flux measured by the Alpha Magnetic Spectrometer (AM…

This https://arxiv.org/abs/2505.19934 has been replaced.
initial toot: https://mastoxiv.page/@arXi…

Disentangling hierarchical relaxations in glass formers via dynamic eigenmodes
Hierarchical dynamics in glass-forming systems span multiple timescales, from fast vibrations to slow structural rearrangements, appearing in both supercooled fluids and glassy states. Understanding how these diverse processes interact across timescales remains a central challenge. Here, by combining direct particle-level observations with a dynamic eigenmode approach that decomposes intermediate-timescale responses into distinct modes, we reveal the microscopic organisation of relaxation dynam…

[2025-04-30 Wed (UTC), no new articles found for q-bio.SC Subcellular Processes]
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[2025-05-30 Fri (UTC), no new articles found for q-bio.SC Subcellular Processes]
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