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Showing 227 results for "rene caky" in Engineering · Preprint
Engineering Preprint PDF DOI

An Exponentially stable Extended Kalman Filter with Estimate dependent Process noise Covariance for Chemical Reaction Networks

Suryasnata Dash, Abhishek Dey · 2026

Biomolecular systems are often modeled with partially known nonlinear stochastic dynamics, making state and parameter estimation a central challenge. While Kalman filtering techniques are widely used …

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Engineering Preprint PDF DOI

AMO-ENE: Attention-based Multi-Omics Fusion Model for Outcome Prediction in Extra Nodal Extension and HPV-associated Oropharyngeal Cancer

Gautier Henique, William Le, Gabriel Dayan, Coralie Brodeur, Kristoff Nelson, Apostolos Christopoulos, Edith Filion, Phuc-Felix Nguyen-Tan, Laurent Letourneau-Guillon, Houda Bahig, Samuel Kadoury · 2026

Extranodal extension (ENE) is an emerging prognostic factor in human papillomavirus (HPV)-associated oropharyngeal cancer (OPC), although it is currently omitted as a clinical staging criteria. Recent…

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Engineering Preprint PDF DOI

SwarmCoDe: A Scalable Co-Design Framework for Heterogeneous Robot Swarms via Dynamic Speciation

Andrew Wilhelm, Josie Hughes · 2026

Robot swarms offer inherent robustness and the capacity to execute complex, collaborative tasks surpassing the capabilities of single-agent systems. Co-designing these systems is critical, as marginal…

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Engineering Preprint PDF DOI

EquivAnIA: A Spectral Method for Rotation-Equivariant Anisotropic Image Analysis

Jeremy Scanvic, Nils Laurent · 2026

Anisotropic image analysis is ubiquitous in medical and scientific imaging, and while the literature on the subject is extensive, the robustness to numerical rotations of numerous methods remains to b…

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Engineering Preprint PDF DOI

Molecular Dynamics Simulations Reveal PolyQ-Length-Dependent Conformational Changes in Huntingtin Exon-1: Implications for Environmental Co-Solvent Modulation of Aggregation-Prone States

Jai Geddes-Nelson, Xiaochen Liu, Ken-Tye Yong · 2026

Huntington's disease (HD) is caused by CAG-repeat expansion in HTT, which lengthens the polyglutamine (polyQ) tract in huntingtin (HTT) and promotes misfolding and aggregation. While polyQ-length-depe…

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Engineering Preprint PDF DOI

Multicellular Feedback Control Strategies in Synthetic Microbial Consortia: From Embedded to Distributed Control

Mario di Bernardo · 2026

Living organisms rely on endogenous feedback mechanisms to maintain homeostasis in the presence of uncertainty and environmental fluctuations. An emerging challenge at the interface of control systems…

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Engineering Preprint PDF DOI

Learning Adaptive Perturbation-Conditioned Contexts for Robust Transcriptional Response Prediction

Yinhua Piao, Hyomin Kim, Seonghwan Kim, Yunhak Oh, Junhyeok Jeon, Sang-Yeon Hwang, Jaechang Lim, Woo Youn Kim, Chanyoung Park, Sungsoo Ahn · 2026

Predicting high-dimensional transcriptional responses to genetic perturbations is challenging due to severe experimental noise and sparse gene-level effects. Existing methods often suffer from mean co…

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Engineering Preprint PDF DOI

Cell-JEPA: Latent Representation Learning for Single-Cell Transcriptomics

Ali ElSheikh, Rui-Xi Wang, Weimin Wu, Yibo Wen, Payam Dibaeinia, Jennifer Yuntong Zhang, Jerry Yao-Chieh Hu, Mei Knudson, Sudarshan Babu, Shao-Hua Sun, Aly A. Khan, Han Liu · 2026

Single-cell foundation models learn by reconstructing masked gene expression, implicitly treating technical noise as signal. With dropout rates exceeding 90%, reconstruction objectives encourage model…

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Engineering Preprint PDF DOI

Advanced techniques and applications of LiDAR Place Recognition in Agricultural Environments: A Comprehensive Survey

Judith Vilella-Cantos, Monica Ballesta, David Valiente, Maria Flores, Luis Paya · 2026

An optimal solution to the localization problem is essential for developing autonomous robotic systems. Apart from autonomous vehicles, precision agriculture is one of the elds that can bene t most fr…

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Engineering Preprint PDF DOI

RENEW: Risk- and Energy-Aware Navigation in Dynamic Waterways

Mingi Jeong, Alberto Quattrini Li · 2026

We present RENEW, a global path planner for Autonomous Surface Vehicle (ASV) in dynamic environments with external disturbances (e.g., water currents). RENEW introduces a unified risk- and energy-awar…

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Engineering Preprint PDF DOI

Host-Aware Control of Gene Expression using Data-Enabled Predictive Control

Liam Perreault, Idris Kempf, Kirill Sechkar, Jean-Baptiste Lugagne, Antonis Papachristodoulou · 2026

Cybergenetic gene expression control in bacteria enables applications in engineering biology, drug development, and biomanufacturing. AI-based controllers offer new possibilities for real-time, single…

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Engineering Preprint PDF DOI

A Data-Enhanced Agent-Based Model for Simulating 3D Cancer Spheroid Growth: Integrating Metabolism and Mechanics

Pedro Garcia-Gomez, Paula Guerrero-Lopez, Silvia Hervas-Raluy, Jose Manuel Garcia-Aznar · 2025

Cancer research has shifted from a purely gene-centric view to a more holistic understanding that recognizes the critical role of the tumour microenvironment, where mechanics and metabolism are key dr…

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Engineering Preprint PDF DOI

Switching-time bioprocess control with pulse-width-modulated optogenetics

Sebastian Espinel-Rios · 2025

Biotechnology can benefit from dynamic control to improve production efficiency. In this context, optogenetics enables modulation of gene expression using light as an external input, allowing fine-tun…

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Engineering Preprint PDF DOI

Funnel-Based Online Recovery Control for Nonlinear Systems With Unknown Dynamics

Zihao Song, Shirantha Welikala, Panos J. Antsaklis, Hai Lin · 2025

In this paper, we focus on recovery control of nonlinear systems from attacks or failures. The main challenges of this problem lie in (1) learning the unknown dynamics caused by attacks or failures wi…

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Engineering Preprint PDF DOI

Morpho-Genomic Deep Learning for Ovarian Cancer Subtype and Gene Mutation Prediction from Histopathology

Gabriela Fernandes · 2025

Ovarian cancer remains one of the most lethal gynecological malignancies, largely due to late diagnosis and extensive heterogeneity across subtypes. Current diagnostic methods are limited in their abi…

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Engineering Preprint PDF DOI

Contributions to Semialgebraic-Set-Based Stability Verification of Dynamical Systems with Neural-Network-Based Controllers

Alvaro Detailleur, Dalim Wahby, Guillaume Ducard, Christopher Onder · 2025

Neural-network-based controllers (NNCs) can represent complex, highly nonlinear control laws, but verifying the closed-loop stability of dynamical systems using them remains challenging. This work pre…

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Engineering Preprint PDF DOI

Dynamic Modeling and Control System Analysis for Continuous-Disc Filters in Pulp Mill Operations

Jose M. Campos-Salazar, Felipe Santander, Sebastian Larrain · 2025

Vacuum disc filtration is critical in pulp mills for white liquor clarification and pulp washing, involving tightly coupled dynamics between rotational speed, vacuum pressure, slurry concentration, fi…

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Engineering Preprint PDF DOI

Robustly Constrained Dynamic Games for Uncertain Nonlinear Dynamics

Shuyu Zhan, Chih-Yuan Chiu, Antoine P. Leeman, Glen Chou · 2025

We propose a novel framework for robust dynamic games with nonlinear dynamics corrupted by state-dependent additive noise, and nonlinear agent-specific and shared constraints. Leveraging system-level …

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Engineering Preprint PDF DOI

On the Number of Control Nodes of Threshold and XOR Boolean Networks

Christopher H. Fok, Liangjie Sun, Tatsuya Akutsu, Wai-Ki Ching · 2025

Boolean networks (BNs) are important models for gene regulatory networks and many other biological systems. In this paper, we study the minimal controllability problem of threshold and XOR BNs with de…

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Engineering Preprint PDF DOI

Hint: hierarchical inter-frame correlation for one-shot point cloud sequence compression

Yuchen Gao, Qi Zhang · 2025

Deep learning has demonstrated strong capability in compressing point clouds. Within this area, entropy modeling for lossless compression is widely investigated. However, most methods rely solely on p…

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