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Quantitative Methods

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Total of 30 entries : 1-25 26-30
Showing up to 25 entries per page: fewer | more | all

Fri, 21 Jun 2024 (showing 13 of 13 entries )

[1] arXiv:2406.14246 [pdf, html, other]
Title: Non-Negative Universal Differential Equations With Applications in Systems Biology
Maren Philipps, Antonia Körner, Jakob Vanhoefer, Dilan Pathirana, Jan Hasenauer
Comments: 6 pages, This work has been submitted to IFAC for possible publication. Initial submission was March 18, 2024
Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG); Dynamical Systems (math.DS); Machine Learning (stat.ML)
[2] arXiv:2406.14142 [pdf, other]
Title: Geometric Self-Supervised Pretraining on 3D Protein Structures using Subgraphs
Michail Chatzianastasis, George Dasoulas, Michalis Vazirgiannis
Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG); Biomolecules (q-bio.BM)
[3] arXiv:2406.14062 [pdf, html, other]
Title: An agent-based model of behaviour change calibrated to reversal learning data
Roben Delos Reyes, Hugo Lyons Keenan, Cameron Zachreson
Comments: 23 pages, 5 figures
Subjects: Quantitative Methods (q-bio.QM); Biological Physics (physics.bio-ph); Computation (stat.CO)
[4] arXiv:2406.13889 [pdf, html, other]
Title: Network-community analysis of cellular senescence
Alda Sabalic, Victoria Moiseeva, Andres Cisneros, Oleg Deryagin, Eusebio Perdiguero, Pura Muñoz-Canoves, Jordi Garcia-Ojalvo
Comments: 20 pages, 11 figures
Subjects: Quantitative Methods (q-bio.QM)
[5] arXiv:2406.13489 [pdf, html, other]
Title: Efficient gPC-based quantification of probabilistic robustness for systems in neuroscience
Uros Sutulovic, Daniele Proverbio, Rami Katz, Giulia Giordano
Subjects: Quantitative Methods (q-bio.QM)
[6] arXiv:2406.13292 [pdf, html, other]
Title: An interpretable generative multimodal neuroimaging-genomics framework for decoding Alzheimer's disease
Giorgio Dolci (1,2), Federica Cruciani (1), Md Abdur Rahaman (2), Anees Abrol (2), Jiayu Chen (2), Zening Fu (2), Ilaria Boscolo Galazzo (1), Gloria Menegaz (1), Vince D. Calhoun (2) ((1) Department of Engineering for Innovation Medicine, University of Verona, Verona, Italy, (2) Tri-Institutional Center for Translational Research in Neuroimaging and Data Science (TReNDS), Georgia State University, Georgia Institute of Technology, Emory University, Atlanta, GA, USA)
Comments: 27 pages, 7 figures, submitted to a journal
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Image and Video Processing (eess.IV)
[7] arXiv:2406.12950 [pdf, html, other]
Title: MolecularGPT: Open Large Language Model (LLM) for Few-Shot Molecular Property Prediction
Yuyan Liu, Sirui Ding, Sheng Zhou, Wenqi Fan, Qiaoyu Tan
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Computational Engineering, Finance, and Science (cs.CE); Computation and Language (cs.CL); Machine Learning (cs.LG)
[8] arXiv:2406.12949 [pdf, html, other]
Title: Integrating time-resolved $nrf2$ gene-expression data into a full GUTS model as a proxy for toxicodynamic damage in zebrafish embryo
Florian Schunck, Bernhard Kodritsch, Wibke Busch, Martin Krauss, Andreas Focks
Subjects: Quantitative Methods (q-bio.QM); Dynamical Systems (math.DS); Applications (stat.AP)
[9] arXiv:2406.14287 (cross-list from eess.IV) [pdf, html, other]
Title: Segmentation of Non-Small Cell Lung Carcinomas: Introducing DRU-Net and Multi-Lens Distortion
Soroush Oskouei, Marit Valla, André Pedersen, Erik Smistad, Vibeke Grotnes Dale, Maren Høibø, Sissel Gyrid Freim Wahl, Mats Dehli Haugum, Thomas Langø, Maria Paula Ramnefjell, Lars Andreas Akslen, Gabriel Kiss, Hanne Sorger
Comments: 16 pages, 7 figures, submitted to Scientific Reports
Subjects: Image and Video Processing (eess.IV); Computer Vision and Pattern Recognition (cs.CV); Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)
[10] arXiv:2406.14021 (cross-list from cs.CL) [pdf, html, other]
Title: HIGHT: Hierarchical Graph Tokenization for Graph-Language Alignment
Yongqiang Chen, Quanming Yao, Juzheng Zhang, James Cheng, Yatao Bian
Comments: Preliminary version of an ongoing project: this https URL
Subjects: Computation and Language (cs.CL); Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)
[11] arXiv:2406.13644 (cross-list from math.NA) [pdf, html, other]
Title: Kinetic Monte Carlo methods for three-dimensional diffusive capture problems in exterior domains
Alan E. Lindsay, Andrew J. Bernoff
Comments: 32 pages, 10 figures
Subjects: Numerical Analysis (math.NA); Analysis of PDEs (math.AP); Biological Physics (physics.bio-ph); Quantitative Methods (q-bio.QM)
[12] arXiv:2406.13284 (cross-list from physics.med-ph) [pdf, other]
Title: The association of domain-specific physical activity and sedentary activity with stroke: A prospective cohort study
Xinyi He, Shidi Wang, Yi Li, Jiucun Wang, Guangrui Yang, Jun Chen, Zixin Hu
Subjects: Medical Physics (physics.med-ph); Quantitative Methods (q-bio.QM)
[13] arXiv:2406.13162 (cross-list from cs.LG) [pdf, html, other]
Title: AntibodyFlow: Normalizing Flow Model for Designing Antibody Complementarity-Determining Regions
Bohao Xu, Yanbo Wang, Wenyu Chen, Shimin Shan
Subjects: Machine Learning (cs.LG); Artificial Intelligence (cs.AI); Quantitative Methods (q-bio.QM)

Wed, 19 Jun 2024 (showing 5 of 5 entries )

[14] arXiv:2406.11975 [pdf, html, other]
Title: Uncovering sequence diversity from a known protein structure
Luca Alessandro Silva, Barthelemy Meynard-Piganeau, Carlo Lucibello, Christoph Feinauer
Subjects: Quantitative Methods (q-bio.QM)
[15] arXiv:2406.11906 [pdf, html, other]
Title: NovoBench: Benchmarking Deep Learning-based De Novo Peptide Sequencing Methods in Proteomics
Jingbo Zhou, Shaorong Chen, Jun Xia, Sizhe Liu, Tianze Ling, Wenjie Du, Yue Liu, Jianwei Yin, Stan Z. Li
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI)
[16] arXiv:2406.11900 [pdf, html, other]
Title: Horizon-wise Learning Paradigm Promotes Gene Splicing Identification
Qi-Jie Li, Qian Sun, Shao-Qun Zhang
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Machine Learning (cs.LG)
[17] arXiv:2406.12807 (cross-list from cs.AI) [pdf, html, other]
Title: Probabilistic Temporal Prediction of Continuous Disease Trajectories and Treatment Effects Using Neural SDEs
Joshua Durso-Finley, Berardino Barile, Jean-Pierre Falet, Douglas L. Arnold, Nick Pawlowski, Tal Arbel
Subjects: Artificial Intelligence (cs.AI); Machine Learning (cs.LG); Image and Video Processing (eess.IV); Quantitative Methods (q-bio.QM)
[18] arXiv:2406.12056 (cross-list from cs.LG) [pdf, html, other]
Title: Learning Molecular Representation in a Cell
Gang Liu, Srijit Seal, John Arevalo, Zhenwen Liang, Anne E. Carpenter, Meng Jiang, Shantanu Singh
Comments: 21 pages, 8 tables, 7 figures
Subjects: Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)

Tue, 18 Jun 2024 (showing 6 of 6 entries )

[19] arXiv:2406.11178 [pdf, html, other]
Title: Increasing certainty in systems biology models using Bayesian multimodel inference
Nathaniel Linden-Santangeli, Jin Zhang, Boris Kramer, Padmini Rangamani
Comments: 25 pages; 5 figures
Subjects: Quantitative Methods (q-bio.QM)
[20] arXiv:2406.10921 [pdf, other]
Title: Improved absolute abundance estimates from spatial count data with simulation and microfossil case studies
Chris Mays, Marcos Amores, Anthony Mays
Comments: 103 pages, of which 67 pages constitutes the main text, and the remaining 36 pages are Supporting Information. 9 figures. The code for the related simulations can be found via a link in the manuscript
Subjects: Quantitative Methods (q-bio.QM)
[21] arXiv:2406.10391 [pdf, html, other]
Title: BEACON: Benchmark for Comprehensive RNA Tasks and Language Models
Yuchen Ren, Zhiyuan Chen, Lifeng Qiao, Hongtai Jing, Yuchen Cai, Sheng Xu, Peng Ye, Xinzhu Ma, Siqi Sun, Hongliang Yan, Dong Yuan, Wanli Ouyang, Xihui Liu
Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG)
[22] arXiv:2406.11140 (cross-list from q-bio.MN) [pdf, html, other]
Title: Computing the Frequency Response of Biochemical Networks: A Python module
Herbert M Sauro
Subjects: Molecular Networks (q-bio.MN); Quantitative Methods (q-bio.QM)
[23] arXiv:2406.10893 (cross-list from eess.IV) [pdf, other]
Title: Development and Validation of Fully Automatic Deep Learning-Based Algorithms for Immunohistochemistry Reporting of Invasive Breast Ductal Carcinoma
Sumit Kumar Jha, Purnendu Mishra, Shubham Mathur, Gursewak Singh, Rajiv Kumar, Kiran Aatre, Suraj Rengarajan
Subjects: Image and Video Processing (eess.IV); Artificial Intelligence (cs.AI); Computer Vision and Pattern Recognition (cs.CV); Quantitative Methods (q-bio.QM); Tissues and Organs (q-bio.TO)
[24] arXiv:2406.10611 (cross-list from stat.AP) [pdf, html, other]
Title: Information-theoretic evaluation of covariate distributions models
Niklas Hartung, Aleksandra Khatova
Subjects: Applications (stat.AP); Quantitative Methods (q-bio.QM)

Mon, 17 Jun 2024 (showing first 1 of 3 entries )

[25] arXiv:2406.10146 [pdf, other]
Title: Multimodal Radiomics Model for Predicting Gold Nanoparticles Accumulation in Mouse Tumors
Jiajia Tang, Jie Zhang, Jiulou Zhang, Yuxia Tang, Hao Ni, Shouju Wang
Subjects: Quantitative Methods (q-bio.QM)
Total of 30 entries : 1-25 26-30
Showing up to 25 entries per page: fewer | more | all