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Quantitative Methods

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Total of 26 entries
Showing up to 50 entries per page: fewer | more | all

Fri, 22 Nov 2024 (showing 3 of 3 entries )

[1] arXiv:2411.14157 [pdf, html, other]
Title: DrugGen: Advancing Drug Discovery with Large Language Models and Reinforcement Learning Feedback
Mahsa Sheikholeslami, Navid Mazrouei, Yousof Gheisari, Afshin Fasihi, Matin Irajpour, Ali Motahharynia
Comments: 20 pages, 5 figures, 3 tables, and 7 supplementary files. To use the model, see this https URL
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI)
[2] arXiv:2411.13680 [pdf, html, other]
Title: Long-term predictive models for mosquito borne diseases: a narrative review
Marcio Maciel Bastos, Luiz Max Carvalho, Eduardo Correa Araujo, Flávio Codeço Coelho
Subjects: Quantitative Methods (q-bio.QM); Dynamical Systems (math.DS); Biological Physics (physics.bio-ph)
[3] arXiv:2411.14242 (cross-list from cs.CE) [pdf, html, other]
Title: Approximate Constrained Lumping of Chemical Reaction Networks
Alexander Leguizamon-Robayo, Antonio Jiménez-Pastor, Micro Tribastone, Max Tschaikowski, Andrea Vandin
Subjects: Computational Engineering, Finance, and Science (cs.CE); Quantitative Methods (q-bio.QM)

Thu, 21 Nov 2024 (showing 3 of 3 entries )

[4] arXiv:2411.13263 [pdf, html, other]
Title: Estimating the tails of the spectrum of the Hessian of the log-likelihood for \textit{ab-initio} single-particle reconstruction in electron cryomicroscopy
Aaditya V. Rangan, Wai-Shing Tang, Pilar Cossio, Kexin Zhang, Nikolaus Grigorieff
Subjects: Quantitative Methods (q-bio.QM)
[5] arXiv:2411.12784 [pdf, other]
Title: Cancer incidence estimation from mortality data: a validation study within a population-based cancer registry
Daniel Redondo-Sánchez, Miguel Rodríguez-Barranco, Alberto Ameijide, Francisco J. Alonso, Pablo Fernández-Navarro, Jose Juan Jiménez-Moleón, María-José Sánchez
Journal-ref: Population Health Metrics, Volume 19, 18, 2021
Subjects: Quantitative Methods (q-bio.QM)
[6] arXiv:2411.12886 (cross-list from q-bio.BM) [pdf, html, other]
Title: NPGPT: Natural Product-Like Compound Generation with GPT-based Chemical Language Models
Koh Sakano, Kairi Furui, Masahito Ohue
Subjects: Biomolecules (q-bio.BM); Machine Learning (cs.LG); Quantitative Methods (q-bio.QM); Machine Learning (stat.ML)

Wed, 20 Nov 2024 (showing 6 of 6 entries )

[7] arXiv:2411.12707 [pdf, html, other]
Title: Barttender: An approachable & interpretable way to compare medical imaging and non-imaging data
Ayush Singla, Shakson Isaac, Chirag J. Patel
Comments: Accepted to the Proceedings Track at Machine Learning for Health (ML4H 2024) conference, held on December 15-16, 2024 in Vancouver, Canada
Subjects: Quantitative Methods (q-bio.QM); Computer Vision and Pattern Recognition (cs.CV)
[8] arXiv:2411.12662 [pdf, html, other]
Title: bia-binder: A web-native cloud compute service for the bioimage analysis community
Craig T. Russell, Jean-Marie Burel, Awais Athar, Simon Li, Ugis Sarkans, Jason Swedlow, Alvis Brazma, Matthew Hartley, Virginie Uhlmann
Subjects: Quantitative Methods (q-bio.QM)
[9] arXiv:2411.12656 (cross-list from physics.optics) [pdf, html, other]
Title: Flat Cell Imaging
Vahid Nasirimarekani, Zuzana Ditte, Eberhard Bodenschatz
Subjects: Optics (physics.optics); Quantitative Methods (q-bio.QM)
[10] arXiv:2411.12370 (cross-list from q-bio.BM) [pdf, html, other]
Title: Rapid response to fast viral evolution using AlphaFold 3-assisted topological deep learning
JunJie Wee, Guo-Wei Wei
Comments: 21 pages, 4 figures
Subjects: Biomolecules (q-bio.BM); Populations and Evolution (q-bio.PE); Quantitative Methods (q-bio.QM)
[11] arXiv:2411.12145 (cross-list from q-bio.NC) [pdf, other]
Title: Hierarchical Trait-State Model for Decoding Dyadic Social Interactions
Qianying Wu, Shigeki Nakauchi, Mohammad Shehata, Shinsuke Shimojo
Subjects: Neurons and Cognition (q-bio.NC); Quantitative Methods (q-bio.QM)
[12] arXiv:2411.12087 (cross-list from q-bio.MN) [pdf, html, other]
Title: RatGene: Gene deletion-addition algorithms using growth to production ratio for growth-coupled production in constraint-based metabolic networks
Yier Ma, Takeyuki Tamura
Subjects: Molecular Networks (q-bio.MN); Quantitative Methods (q-bio.QM)

Tue, 19 Nov 2024 (showing 11 of 11 entries )

[13] arXiv:2411.11808 [pdf, html, other]
Title: Character-level Tokenizations as Powerful Inductive Biases for RNA Foundational Models
Adrián Morales-Pastor, Raquel Vázquez-Reza, Miłosz Wieczór, Clàudia Valverde, Manel Gil-Sorribes, Bertran Miquel-Oliver, Álvaro Ciudad, Alexis Molina
Comments: First version. Work in progress
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Machine Learning (cs.LG); Biomolecules (q-bio.BM)
[14] arXiv:2411.11513 [pdf, html, other]
Title: A Modular Open Source Framework for Genomic Variant Calling
Ankita Vaishnobi Bisoi, Bharath Ramsundar
Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG)
[15] arXiv:2411.10574 [pdf, html, other]
Title: Random feature baselines provide distributional performance and feature selection benchmarks for clinical and 'omic ML
Randall J. Ellis, Audrey Airaud, Chirag J. Patel
Comments: Findings paper presented at Machine Learning for Health (ML4H) symposium 2024, December 15-16, 2024, Vancouver, Canada, 5 pages
Subjects: Quantitative Methods (q-bio.QM)
[16] arXiv:2411.10505 [pdf, html, other]
Title: Multi-point Infection Dynamics of Hepatitis B in the Presence of Sub-Viral Particles
Rupchand Sutradhar, Gopinath Sadhu, D C Dalal
Subjects: Quantitative Methods (q-bio.QM)
[17] arXiv:2411.11668 (cross-list from cs.LG) [pdf, html, other]
Title: Efficient and Robust Continual Graph Learning for Graph Classification in Biology
Ding Zhang, Jane Downer, Can Chen, Ren Wang
Subjects: Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)
[18] arXiv:2411.11602 (cross-list from q-bio.PE) [pdf, html, other]
Title: Relating dynamics and structure of discrete and continuous time systems
Shuyun Jiao, David Waxman
Comments: 32 pages, 7 figures
Subjects: Populations and Evolution (q-bio.PE); Exactly Solvable and Integrable Systems (nlin.SI); Quantitative Methods (q-bio.QM)
[19] arXiv:2411.11530 (cross-list from cs.LG) [pdf, html, other]
Title: SeqProFT: Applying LoRA Finetuning for Sequence-only Protein Property Predictions
Shuo Zhang, Jian K. Liu
Subjects: Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)
[20] arXiv:2411.11474 (cross-list from cs.LG) [pdf, other]
Title: Graph Artificial Intelligence for Quantifying Compatibility Mechanisms in Traditional Chinese Medicine
Jingqi Zeng, Xiaobin Jia
Comments: 10 pages, 5 figures. Includes open-source dataset and code for reproducibility
Subjects: Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)
[21] arXiv:2411.11265 (cross-list from cs.LG) [pdf, html, other]
Title: GROOT: Effective Design of Biological Sequences with Limited Experimental Data
Thanh V. T. Tran, Nhat Khang Ngo, Viet Anh Nguyen, Truong Son Hy
Subjects: Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)
[22] arXiv:2411.10817 (cross-list from cs.LG) [pdf, html, other]
Title: Conformation Generation using Transformer Flows
Sohil Atul Shah, Vladlen Koltun
Comments: Technical Report. Code available at this https URL
Subjects: Machine Learning (cs.LG); Quantitative Methods (q-bio.QM); Machine Learning (stat.ML)
[23] arXiv:2411.10720 (cross-list from cs.LG) [pdf, html, other]
Title: Multi Scale Graph Neural Network for Alzheimer's Disease
Anya Chauhan, Ayush Noori, Zhaozhi Li, Yingnan He, Michelle M Li, Marinka Zitnik, Sudeshna Das
Comments: Findings paper presented at Machine Learning for Health (ML4H) symposium 2024, December 15-16, 2024, Vancouver, Canada, 9 pages
Subjects: Machine Learning (cs.LG); Neurons and Cognition (q-bio.NC); Quantitative Methods (q-bio.QM)

Mon, 18 Nov 2024 (showing 3 of 3 entries )

[24] arXiv:2411.10116 [pdf, html, other]
Title: Two-step registration method boosts sensitivity in longitudinal fixel-based analyses
Aurélie Lebrun, Michel Bottlaender, Julien Lagarde, Marie Sarazin, Yann Leprince
Comments: 4 pages, 6 figures, submitted to IEEE International Symposium on Biomedical Imaging (ISBI 2025)
Subjects: Quantitative Methods (q-bio.QM); Image and Video Processing (eess.IV); Medical Physics (physics.med-ph)
[25] arXiv:2411.09714 [pdf, html, other]
Title: Machine learning approaches to explore important features behind bird flight modes
Yukino Kawai, Tatsuya Hisada, Kozue Shiomi, Momoko Hayamizu
Comments: 6 pages, 5 figures
Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG)
[26] arXiv:2411.09766 (cross-list from cs.CV) [pdf, html, other]
Title: NACNet: A Histology Context-aware Transformer Graph Convolution Network for Predicting Treatment Response to Neoadjuvant Chemotherapy in Triple Negative Breast Cancer
Qiang Li, George Teodoro, Yi Jiang, Jun Kong
Comments: This paper is accepted by Computerized Medical Imaging and Graphics (Nov 07 2024)
Subjects: Computer Vision and Pattern Recognition (cs.CV); Quantitative Methods (q-bio.QM)
Total of 26 entries
Showing up to 50 entries per page: fewer | more | all