Quantitative Methods

Authors and titles for q-bio.QM in Feb 2024

[1]  arXiv:2402.00548 [pdf, ps, other]

Title: Plant sesquiterpene lactones

Authors: Olivia Agatha, Daniela Mutwil-Anderwald, Jhing Yein Tan, Marek Mutwil

Subjects: Quantitative Methods (q-bio.QM)

[2]  arXiv:2402.01598 [pdf, other]

Title: Learning from Two Decades of Blood Pressure Data: Demography-Specific Patterns Across 75 Million Patient Encounters

Authors: Seyedeh Somayyeh Mousavi, Yuting Guo, Abeed Sarker, Reza Sameni

Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG); Applications (stat.AP)

[3]  arXiv:2402.01744 [pdf, other]

Title: Unveiling Molecular Moieties through Hierarchical Graph Explainability

Authors: Paolo Sortino, Salvatore Contino, Ugo Perricone, Roberto Pirrone

Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Machine Learning (cs.LG); Molecular Networks (q-bio.MN)

[4]  arXiv:2402.02129 [pdf, ps, other]

Title: Nature's Brewery to Bedtime: The Role of Hops in GABAA Receptor Modulation and Sleep Promotion

Authors: Ali Y. Benkherouf

Comments: 189 pages, 41 figures, dissertation

Journal-ref: Doctoral Dissertation University of Turku. ISBN: 978-951-29-9577-6 (2023)

Subjects: Quantitative Methods (q-bio.QM)

[5]  arXiv:2402.02203 [pdf, ps, other]

Title: Cell Painting Gallery: an open resource for image-based profiling

Authors: Erin Weisbart, Ankur Kumar, John Arevalo, Anne E. Carpenter, Beth A. Cimini, Shantanu Singh

Comments: 9 pages, 1 table

Subjects: Quantitative Methods (q-bio.QM)

[6]  arXiv:2402.03397 [pdf, ps, other]

Title: A Comprehensive Approach to Diagnosing Temporomandibular Joint Diseases: AI-driven TMD Diagnostic System

Authors: Y. Gua, C.T. Kong, D.D Zhangc, Y.J Baid, J.K.H. Tsoia, Hua Huangc, Y.Q. Dengc, Y.M Zhue

Subjects: Quantitative Methods (q-bio.QM); Image and Video Processing (eess.IV)

[7]  arXiv:2402.03781 [pdf, other]

Title: MolTC: Towards Molecular Relational Modeling In Language Models

Authors: Junfeng Fang, Shuai Zhang, Chang Wu, Zhengyi Yang, Zhiyuan Liu, Sihang Li, Kun Wang, Wenjie Du, Xiang Wang

Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Machine Learning (cs.LG)

[8]  arXiv:2402.03823 [pdf, ps, other]

Title: Learning immune receptor representations with protein language models

Authors: Andreas Dounas, Tudor-Stefan Cotet, Alexander Yermanos

Subjects: Quantitative Methods (q-bio.QM)

[9]  arXiv:2402.04241 [pdf, ps, other]

Title: Algebraic identifiability of partial differential equation models

Authors: Helen Byrne, Heather Harrington, Alexey Ovchinnikov, Gleb Pogudin, Hamid Rahkooy, Pedro Soto

Subjects: Quantitative Methods (q-bio.QM); Symbolic Computation (cs.SC); Systems and Control (eess.SY); Analysis of PDEs (math.AP)

[10]  arXiv:2402.04286 [pdf, ps, other]

Title: Progress and Opportunities of Foundation Models in Bioinformatics

Authors: Qing Li, Zhihang Hu, Yixuan Wang, Lei Li, Yimin Fan, Irwin King, Le Song, Yu Li

Comments: 27 pages, 3 figures, 2 tables

Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Machine Learning (cs.LG)

[11]  arXiv:2402.05377 [pdf, ps, other]

Title: Association between Sitting Time and Urinary Incontinence in the US Population: data from the National Health and Nutrition Examination Survey (NHANES) 2007 to 2018

Authors: Guanbo Wang, Xingpeng Di

Comments: 15 pages, 3 figures, and 3 tables

Subjects: Quantitative Methods (q-bio.QM); Methodology (stat.ME)

[12]  arXiv:2402.05750 [pdf, ps, other]

Title: Surrogate Modeling and Control of Medical Digital Twins

Authors: Luis L. Fonseca, Lucas Böttcher, Borna Mehrad, Reinhard C. Laubenbacher

Comments: 50 pages, 4 figures, 22 supplementary figures

Subjects: Quantitative Methods (q-bio.QM); Systems and Control (eess.SY); Dynamical Systems (math.DS); Optimization and Control (math.OC)

[13]  arXiv:2402.05924 [pdf, other]

Title: Understanding Social Immunity in Ants: A Markovian Approach to Collective Cleaning Strategies

Authors: Isabella Bueno, Gabriel R. Palma, Idemauro A. R. Lara, Rafael A. Moral, Italo Delalibera Jr, Wesley A. C. Godoy

Comments: 22 pages

Subjects: Quantitative Methods (q-bio.QM)

[14]  arXiv:2402.05953 [pdf, other]

Title: idMotif: An Interactive Motif Identification in Protein Sequences

Authors: Ji Hwan Park, Vikash Prasad, Sydney Newsom, Fares Najar, Rakhi Rajan

Comments: IEEE CGA

Journal-ref: idMotif: An Interactive Motif Identification in Protein Sequences," in IEEE Computer Graphics and Applications, 2023

Subjects: Quantitative Methods (q-bio.QM); Graphics (cs.GR); Human-Computer Interaction (cs.HC); Machine Learning (cs.LG)

[15]  arXiv:2402.05982 [pdf, other]

Title: Decoupled Sequence and Structure Generation for Realistic Antibody Design

Authors: Nayoung Kim, Minsu Kim, Sungsoo Ahn, Jinkyoo Park

Comments: 18 pages, 6 figures

Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG)

[16]  arXiv:2402.06101 [pdf, ps, other]

Title: PULSAR Effect: Revealing Potential Synergies in Combined Radiation Therapy and Immunotherapy via Differential Equations

Authors: Samiha Rouf, Casey Moore, Debabrata Saha, Dan Nguyen, MaryLena Bleile, Robert Timmerman, Hao Peng, Steve Jiang

Subjects: Quantitative Methods (q-bio.QM); Dynamical Systems (math.DS)

[17]  arXiv:2402.06748 [pdf, other]

Title: CLIPZyme: Reaction-Conditioned Virtual Screening of Enzymes

Authors: Peter G. Mikhael, Itamar Chinn, Regina Barzilay

Subjects: Quantitative Methods (q-bio.QM)

[18]  arXiv:2402.06772 [pdf, other]

Title: Retrosynthesis Prediction via Search in (Hyper) Graph

Authors: Zixun Lan, Binjie Hong, Jiajun Zhu, Zuo Zeng, Zhenfu Liu, Limin Yu, Fei Ma

Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Computational Engineering, Finance, and Science (cs.CE); Machine Learning (cs.LG)

[19]  arXiv:2402.06880 [pdf, other]

Title: A single-snapshot inverse solver for two-species graph model of tau pathology spreading in human Alzheimer disease

Authors: Zheyu Wen, Ali Ghafouri, George Biros

Comments: 10 pages, 6 figures

Subjects: Quantitative Methods (q-bio.QM)

[20]  arXiv:2402.06928 [pdf, other]

Title: Happy and Immersive Clustering Segmentations of Biological Co-Expression Patterns

Authors: Richard Tjörnhammar

Subjects: Quantitative Methods (q-bio.QM)

[21]  arXiv:2402.06960 [pdf, other]

Title: Zepyros: A webserver to evaluate the shape complementarity of protein-protein interfaces

Authors: Mattia Miotto, Lorenzo Di Rienzo, Leonardo Bo', Giancarlo Ruocco, Edoardo Milanetti

Comments: 4 pages, 1 figure

Subjects: Quantitative Methods (q-bio.QM)

[22]  arXiv:2402.07012 [pdf, other]

Title: Modelling the role of flux density and coating on nanoparticle internalization by tumor cells under centrifugation

Authors: Gabriel F. Calvo, Belén Cortés-Llanos, Juan Belmonte-Beitia, Gorka Salas, Ángel Ayuso-Sacido

Comments: 39 pages, 9 figures. Manuscript published in Applied Mathematical Modelling 78, 98-116 (2020)

Journal-ref: Applied Mathematical Modelling 78, 98-116 (2020)

Subjects: Quantitative Methods (q-bio.QM)

[23]  arXiv:2402.07684 [pdf, other]

Title: Towards a Foundation Model for Brain Age Prediction using coVariance Neural Networks

Authors: Saurabh Sihag, Gonzalo Mateos, Alejandro Ribeiro

Comments: Preliminary work. Contact sihag.saurabh@gmail.com for the NeuroVNN model and code used for results reported in this manuscript

Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG); Applications (stat.AP)

[24]  arXiv:2402.07948 [pdf, ps, other]

Title: evolSOM: an R Package for evolutionary conservation analysis with SOMs

Authors: Santiago Prochetto, Renata Reinheimer, Georgina Stegmayer

Comments: 8 pages, 1 figure

Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG); Populations and Evolution (q-bio.PE)

[25]  arXiv:2402.07949 [pdf, other]

Title: Optimizing the Design of an Artificial Pancreas to Improve Diabetes Management

Authors: Ashok Khanna, Olivier Francon, Risto Miikkulainen

Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Machine Learning (cs.LG); Neural and Evolutionary Computing (cs.NE)