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arXiv preprints from January 1, 2026 through September 22, 2026 — 06:23:57 EST

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Posted in q-bio.QM · 2026-09-03 · Anna Rosenberg, Stéphanie Laurent, Esther Morandeau, Alix Munoz, Joelle Vinh

The Identification of Biological Stains at Crime Scenes: A Promising Role for Proteomics and Machine Learning

Forensic body fluid identification is crucial for reconstructing crime scene events. While DNA analysis provides individualization, it lacks information about the fluid's origin. We developed and evaluated three complementary proteomic approaches using LC-HRMS/MS to identify blood, saliva, semen, urine, and vaginal fluid, including...

💬 0 commentsarXiv:2609.03521v1PDF
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Posted in q-bio.BM · 2026-09-03 · Merlin Méheut, Michele Lazzeri, Etienne Balan, Francesco Mauri

Structural control over equilibrium silicon and oxygen isotopic fractionation: A first-principles density-functional theory study

Isotopic fractionation factors for oxygen and silicon in selected silicates (quartz, enstatite, forsterite, lizardite, kaolinite) have been calculated using first-principles methods. Good agreement between theory and experiment is obtained in the case of oxygen. In the case of silicon, agreement and differences with existing estimates...

💬 0 commentsarXiv:2609.03486v1PDF
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Posted in cs.LG · 2026-09-03 · Jiarui Lu, Yuyang Wang, Yizhe Zhang, Jiatao Gu, Navdeep Jaitly, Joshua M. Susskind, Miguel Ángel Bautista

SimpleDesign: A Joint Model for Protein Sequence and Structure Codesign

Proteins are fundamental to biological processes, with their function determined by the complex interplay between the amino acid sequence and the three-dimensional structure. Developing generative models capable of understanding this intrinsically multi-modal relationship is crucial for fields like drug discovery and protein...

💬 0 commentsarXiv:2609.03377v1PDF
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Posted in physics.soc-ph · 2026-09-03 · Ricard Solé, Giulio Ruffini, Francesca Castaldo, Marco Tuccio, Luis F. Seoane, Manlio de Domenico, Santiago F. Elena, David C. Krakauer, Michael Levin

Large-Language Models as a Cognitive Virus

Large-language models (LLMs) are rapidly becoming part of human culture, reshaping how information is produced, transmitted, and used. Here we propose that their diffusion can be understood through a viral analogy, with LLM use spreading through populations, becoming embedded in cognitive and cultural practices. We model transitions...

💬 0 commentsarXiv:2609.03344v1PDF
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Posted in cs.CV · 2026-09-03 · Moo K. Chung, Keith J. Worsley, Steve Robbins, Alan C. Evans

Tensor-based Brain Surface Modeling and Analysis

We present a unified computational approach to tensor-based morphometry in detecting the brain surface shape differences between two clinical groups based on magnetic resonance images. Our approach is novel in a sense that we combined surface modeling, surface data smoothing and statistical analysis in a coherent unified mathematical...

💬 0 commentsarXiv:2609.03302v1PDF
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Posted in q-bio.CB · 2026-09-02 · Wesley J. M. Ridgway, Raymond J. Spiteri

Coarse-Graining Agent-Based Models of Bacterial Infections

Agent-based models (ABMs) provide a natural framework for representing cell-level rules and spatial heterogeneity in bacterial infections, but their computational cost limits their use for macroscopic tissue-scale simulations and broad parameter exploration. We derive a deterministic coarse-grained description for a class of...

💬 0 commentsarXiv:2609.03212v1PDF
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Posted in q-bio.BM · 2026-09-02 · Jaya Vasavi Pamidimukkala, Roshan Balaji, Nirav Pravinbhai Bhatt, Sanjib Senapati

An Integrative Computational Approach to Predict Viral Epitopes by Targeting the MHC-TCR Complexation

T-cell immunity acts as a major defense system against controlling viral infections in vertebrates. During viral entry, innate immune cells degrade the viral proteins (antigens) and present them on their surface via Major Histocompatibility (MHC) proteins. T-cell receptors (TCRs) recognize these antigens/peptides presented by MHC...

💬 0 commentsarXiv:2609.03182v1PDF
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Posted in q-bio.GN · 2026-09-02 · Olivier Messina, Loucif Remini, Christopher H. Bohrer, Jean-Bernard Fiche, Jean-Charles Walter, Andrea Parmeggiani, Marcelo Nollmann

Enhancer-promoter proximity predicts transcriptional competence but not transcriptional output in the Drosophila brain

How 3D genome architecture contributes to transcriptional specificity across neuronal cell types remains unclear. Here, we used multiplexed chromatin tracing to map chromatin architecture and cell identity at single-cell resolution in the adult Drosophila brain. We found that enhancer-promoter (E-P) proximity was increased in...

💬 0 commentsarXiv:2609.03058v1PDF
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Posted in q-bio.BM · 2026-09-02 · Bruce J. Wittmann

Advances in Machine Learning for Directed Evolution: A Five-Year Retrospective

The last five-plus years have seen many protein engineering disciplines transformed by advances in machine learning (ML), but the same cannot be said for directed evolution. Reflecting on a previously co-authored perspective, I discuss why I believe this to be the case, arguing that a disconnect between the goals of...

💬 0 commentsarXiv:2609.03046v1PDF
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Posted in q-bio.QM · 2026-09-02 · Tristan Lazard, Kenza Bouzid, Julius Hense, Shruthi Bannur, Daniel Coelho de Castro, Daniel Shao, Rajesh Jena, Drew Williamson, Stephanie Hyland

Sparse concept attribution for histomorphological hypothesis generation from whole-slide classifiers

Histology images contain rich morphological information and can provide insights into pathological processes. However, deriving hypotheses relating morphological phenotypes to clinical attributes is bottlenecked by a manual image interpretation step. Here, we demonstrate that this process can be automated through interpretable deep...

💬 0 commentsarXiv:2609.02985v1PDF
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Posted in eess.SY · 2026-09-03 · Onur Alican, Dionysios Moutevelis, Marc Cheah-Mañe, Oriol Gomis-Bellmunt, Eduardo Prieto-Araujo

Quantifying Power to Voltage and Frequency Dynamics for Oscillation Propagation Assessment

The integration of Inverter-Based Resources (IBRs) into power systems introduces multi-timescale dynamics and oscillations which may propagate to distant areas and endanger the safe system operation. These oscillations pose a significant challenge as their source, frequency, and propagation pathways are often challenging to identify...

💬 0 commentsarXiv:2609.03929v1PDF
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Posted in eess.SY · 2026-09-03 · Peilin Zhang, Antonis Papachristodoulou, Idris Kempf

Data-Based Clustering and Control of Similar Biological Systems

Cybergenetic control of gene expression enables applications in synthetic biology, drug development, and biomanufacturing. Microfluidic platforms allow the parallel control of large cell populations. However, the resulting computational burden and intrinsic biological heterogeneity limit the scalability of conventional control...

💬 0 commentsarXiv:2609.03921v1PDF
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Posted in eess.IV · 2026-09-03 · Lukas Pindl, Michael Maier, Timo Oksanen

Plant Growth Estimation with a Camera-Based Vegetation Index Mapping System for Agricultural Ground Vehicles

This work presents a camera-based sensor for mapping plant growth over an agricultural field. The sensor can be used on ground-based vehicles like a tractor and relies on RTK-GNSS to correctly merge many multispectral images onto one map. NDVI is used as an index to estimate plant growth, but the approach can be used with other...

💬 0 commentsarXiv:2609.03872v1PDF
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Posted in eess.SY · 2026-09-03 · Francesco Capolupo, Frederik Markus

Can Julia land on the Moon? On the development of a GNC simulation framework for the Argonaut lunar lander

No, the Julia programming language cannot land on the Moon - but it can play a crucial role in designing and analysing the Guidance, Navigation, and Control (GNC) algorithms required for doing so. This paper presents the development of a lunar landing simulation framework implemented in Julia at the European Space Agency (ESA), within...

💬 0 commentsarXiv:2609.03843v1PDF
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Posted in eess.SP · 2026-09-03 · Srikanth Kamath, Arnav Mathur, Joslyn Sajan George, Rahul Jashvantbhai Pandya

Closing the Semantic-Edge Gap: Tiny Language Models for 6G Wireless Intelligence

Sixth-generation (6G) wireless networks are envisioned as AI-native systems in which semantic communication - transmitting task-relevant meaning rather than raw bits - moves beyond Shannon's classical bit-pipe model. Large language models (LLMs) dominate semantic encoding but are unsuitable for 6G user equipment and IoT devices, given...

💬 0 commentsarXiv:2609.03747v1PDF
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Posted in cs.IT · 2026-09-03 · Ye Wang, Li Qiao, Zhen Gao, Hua Wang

TokenComSR: Task-Sensitivity-Guided Token Communication for Wireless Image Super-Resolution

For resource-constrained wireless edge devices over bandwidth-limited fading channels, wireless image transmission using traditional separate coding suffers from the cliff-effect collapse. Prevailing deep joint source-channel coding (JSCC) based on convolutional neural networks can mitigate this issue but usually fail to preserve...

💬 0 commentsarXiv:2609.03735v1PDF
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Posted in cs.RO · 2026-09-03 · Vladimir Krsmanovic, Florian Kohn, Bernd Finkbeiner, Milan Simovic

Predictive Zonotope Reduction: Precise Runtime Monitoring under Uncertainty

Robots operating in physical environments make control decisions based on uncertain sensor measurements, which can lead to unsafe or suboptimal actions. Runtime monitors that check their behavior against safety specifications must represent this uncertainty soundly. Zonotopes are a widely used representation, but continuously...

💬 0 commentsarXiv:2609.03699v1PDF
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Posted in eess.SY · 2026-09-03 · Aiwin Thomas Vadakkan, Pietro De Lellis, Mario di Bernardo

Synchronization of directed hypergraphs with heterogeneities via dynamic coupling

Many real-world networks involve interactions among three or more agents that cannot be reduced to pairwise coupling, making hypergraphs a natural modeling framework. In this work, we study complete synchronization in directed hypergraphs of nonlinear agents with parameter mismatches under dynamic diffusive coupling. Although...

💬 0 commentsarXiv:2609.03698v1PDF
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Posted in eess.SP · 2026-09-03 · Aditi Site, Tarmo Lipping

AI-Driven Analysis of the Effects of Recreational Activities to Well-Being using Physiological Responses: A survey

Well-being is a broader concept ensuring psychological, social, physical, and cognitive health. Recreational activities are one of the major approaches to facilitate well-being. There are various recreational activities in each of the domains in which well-being can be measured. Although well-being is often assessed using subjective...

💬 0 commentsarXiv:2609.03692v1PDF
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Posted in cs.CV · 2026-09-03 · Louis Chen, Torbjörn E. M. Nordling

Cross-Dataset Transfer and Reliability of Explainable Artificial Intelligence for RhythmFormer Remote Photoplethysmography

Background. Remote photoplethysmography estimates the cardiovascular pulse from facial video, and its explanations have rested on inspecting heatmaps rather than on quantitative evidence about where a model reads it. We quantified the explanations and asked whether such explanations transfer between datasets and track model...

💬 0 commentsarXiv:2609.03663v1PDF
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Posted in eess.AS · 2026-09-03 · Taewoo Kim, Young Han Lee, Nam In Park, Chanwoo Kim

ToolDF: Tool-Integrated Reasoning for Mixed-Authenticity Audio Deepfake Detection

Audio deepfake detection is commonly formulated as clip-level binary classification of single-domain audio. However, real-world manipulated audio can exhibit mixed authenticity, where genuine and manipulated cues coexist across temporal transitions, overlapping sources, or both. This setting requires not only detecting manipulated...

💬 0 commentsarXiv:2609.03620v1PDF
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Posted in cs.LG · 2026-09-03 · Alessandro Grassi, Edoardo Kimani Bellotto, Wassim El Azami, Sabrina Outmani, Maximilien Houel

Neural-Network Maxent: a general extension with learned nonlinearity, applied to time-series for Desert Locust distribution modelling

Species Distribution Modelling (SDM) is essential for understanding how environmental conditions shape biodiversity, particularly for destructive pests such as the Desert Locust (Schistocerca gregaria), whose breeding dynamics are tightly coupled to rapidly evolving environmental conditions. Maxent has become the dominant method for...

💬 0 commentsarXiv:2609.03603v1PDF
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Posted in cs.AI · 2026-09-03 · Yinan Liu, Jiankang Hong, Zhen Gao, Ye Lu

Feature Reconfiguration With Visual Prior for Medical Lesion Segmentation

Lesion segmentation in medical images plays a critical role in clinical diagnosis and treatment planning. Despite significant advances, lesion segmentation remains challenging due to two major factors: (1) complex background interference; (2) diverse lesion morphology. Existing encoder-decoder based methods mainly focus on enhancing...

💬 0 commentsarXiv:2609.03535v1PDF
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Posted in math.OC · 2026-09-03 · Yangjun Zeng, Yiwei Qiu, Jie Zhu, Yi Zhou, Tao Wu, Xin Meng, Shi Chen, Buxiang Zhou, Kaigui Xie

Beyond Higher-Pulse Rectification: Operational Harmonic Coordination in Renewable P2H Systems

Thyristor rectifiers (TRs) are cost-effective electrolysis power supplies for renewable power-to-hydrogen (ReP2H) systems, but their harmonics may violate grid-code limits. In contrast to conventional solutions that rely on higher-pulse (such as 24-pulse) rectifiers, this paper proposes an operational harmonic coordination scheme that...

💬 0 commentsarXiv:2609.03531v1PDF
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Posted in eess.AS · 2026-09-03 · Akira Omoto

Broadband Acoustic Intensity Direction Estimation with Tight-Frame Cardioid Arrays

This study experimentally investigates source-direction estimation from acoustic intensity using paired cardioid microphones, with particular emphasis on well-balanced arrangements known as tight frames. Impulse responses were measured at 6 or 24 microphone positions, and two opposed-pair spacings were examined. The resulting arrays...

💬 0 commentsarXiv:2609.03490v1PDF