Paper List
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Discovery of a Hematopoietic Manifold in scGPT Yields a Method for Extracting Performant Algorithms from Biological Foundation Model Internals
This work addresses the core challenge of extracting reusable, interpretable, and high-performance biological algorithms from the opaque internal repr...
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MS2MetGAN: Latent-space adversarial training for metabolite–spectrum matching in MS/MS database search
This paper addresses the critical bottleneck in metabolite identification: the generation of high-quality negative training samples that are structura...
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Toward Robust, Reproducible, and Widely Accessible Intracranial Language Brain-Computer Interfaces: A Comprehensive Review of Neural Mechanisms, Hardware, Algorithms, Evaluation, Clinical Pathways and Future Directions
This review addresses the core challenge of fragmented and heterogeneous evidence that hinders the clinical translation of intracranial language BCIs,...
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Less Is More in Chemotherapy of Breast Cancer
通过纳入细胞周期时滞和竞争项,解决了现有肿瘤-免疫模型的过度简化问题,以定量比较化疗方案。
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Fold-CP: A Context Parallelism Framework for Biomolecular Modeling
This paper addresses the critical bottleneck of GPU memory limitations that restrict AlphaFold 3-like models to processing only a few thousand residue...
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Open Biomedical Knowledge Graphs at Scale: Construction, Federation, and AI Agent Access with Samyama Graph Database
This paper addresses the core pain point of fragmented biomedical data by constructing and federating large-scale, open knowledge graphs to enable sea...
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Predictive Analytics for Foot Ulcers Using Time-Series Temperature and Pressure Data
This paper addresses the critical need for continuous, real-time monitoring of diabetic foot health by developing an unsupervised anomaly detection fr...
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Hypothesis-Based Particle Detection for Accurate Nanoparticle Counting and Digital Diagnostics
This paper addresses the core challenge of achieving accurate, interpretable, and training-free nanoparticle counting in digital diagnostic assays, wh...
Physics-Guided Surrogate Modeling for Machine Learning–Driven DLD Design Optimization
Department of Mechanical Engineering, Lehigh University | Computational Engineering Department, Lawrence Livermore National Laboratory | Department of Industrial and Production Engineering, Bangladesh University of Engineering and Technology | Precision Medicine Translational Research Center, West China Hospital, Sichuan University
30秒速读
IN SHORT: This paper addresses the core bottleneck of translating microfluidic DLD devices from research prototypes to clinical applications by replacing weeks-long empirical design cycles with a physics-guided machine learning framework that delivers fabrication-ready specifications in under 60 seconds.
核心创新
- Methodology First complete inverse design framework for DLD that transforms measured cellular deformability into optimized device geometry through physics-guided machine learning.
- Methodology Integration of high-fidelity Lattice-Boltzmann/Immersed-Boundary simulations with XGBoost surrogate models achieving sub-degree predictive accuracy (R²=0.9999, MSE=2×10⁻⁴).
- Methodology Statistical quantification of deformability-geometry interactions via Type II ANOVA revealing significant interaction effects (F=48.23, p<10⁻³⁴) despite geometric dominance of main effects.
主要结论
- Geometric parameters dominate migration angle variance (F=63.72, p<10⁻³⁷), but cellular deformability exerts statistically significant effects through interactions with device geometry (F=48.23, p<10⁻³⁴).
- The XGBoost surrogate model achieves exceptional predictive accuracy (R²=0.9999, MSE=2×10⁻⁴), enabling sub-degree migration angle prediction across the design space.
- Bayesian optimization via tree-structured Parzen estimation identifies optimal DLD architectures in under 60 seconds, reducing design iteration from weeks of experimental prototyping to minutes of automated computation.
摘要: Microfluidic separation technologies have transformed label-free cell sorting by exploiting intrinsic biophysical properties, yet the translation of these platforms from laboratory prototypes to clinical applications remains constrained by the empirical, trial-and-error nature of device design. Deterministic Lateral Displacement (DLD) represents a paradigmatic example: while demonstrating robust discrimination of cells by size, shape, and deformability across diverse applications including circulating tumor cell isolation and malaria diagnostics, DLD performance exhibits extreme sensitivity to the coupled interplay between cellular mechanical phenotype and micron-scale geometric parameters, necessitating iterative fabrication-testing cycles that span weeks to months. We present the first complete inverse design framework that transforms measured cellular deformability into fabrication-ready DLD specifications through physics-guided machine learning. Our approach integrates high-fidelity lattice-Boltzmann and immersed-boundary simulations with gradient-boosted surrogate models to systematically map cellular mechanical properties to migration behavior across manufacturing-feasible geometric configurations (pillar radius, gap, periodicity). Type II ANOVA quantifies the relative influence of these parameters, revealing that while geometric factors dominate migration angle variance (F=63.72, p<10−37), cellular deformability exerts statistically significant effects through interactions with device geometry (F=48.23, p<10−34). The resulting XGBoost surrogate achieves sub-degree predictive accuracy (R2=0.9999, MSE =2×10−4), enabling Bayesian optimization via tree-structured Parzen estimation to identify optimal array architectures in under 60 seconds—reducing design iteration from weeks of experimental prototyping to minutes of automated computation. By deploying this validated pipeline as an accessible web application that accepts experimentally measured deformation indices and returns optimized device specifications with tolerance analysis, we democratize DLD design for researchers without specialized computational expertise, thereby accelerating the translation of microfluidic technologies from research-grade prototypes to application-specific, clinically deployable devices.