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Quantitative Methods

Authors and titles for recent submissions

[ total of 24 entries: 1-24 ]
[ showing up to 25 entries per page: fewer | more ]

Thu, 2 May 2024

[1]  arXiv:2405.00513 [pdf, ps, other]
Title: 3D MR Fingerprinting for Dynamic Contrast-Enhanced Imaging of Whole Mouse Brain
Authors: Yuran Zhu, Guanhua Wang, Yuning Gu, Walter Zhao, Jiahao Lu, Junqing Zhu, Christina J. MacAskill, Andrew Dupuis, Mark A. Griswold, Dan Ma, Chris A. Flask, Xin Yu
Subjects: Quantitative Methods (q-bio.QM)
[2]  arXiv:2405.00070 [pdf, other]
Title: Bayesian-Guided Generation of Synthetic Microbiomes with Minimized Pathogenicity
Authors: Nisha Pillai, Bindu Nanduri, Michael J Rothrock Jr., Zhiqian Chen, Mahalingam Ramkumar
Journal-ref: The 46th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (IEEE EMBC), 2024
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI)
[3]  arXiv:2405.00202 (cross-list from cs.LG) [pdf, other]
Title: Leveraging Active Subspaces to Capture Epistemic Model Uncertainty in Deep Generative Models for Molecular Design
Authors: A N M Nafiz Abeer, Sanket Jantre, Nathan M Urban, Byung-Jun Yoon
Subjects: Machine Learning (cs.LG); Quantitative Methods (q-bio.QM); Machine Learning (stat.ML)
[4]  arXiv:2405.00184 (cross-list from cs.LG) [pdf, other]
Title: Semi-Supervised Hierarchical Multi-Label Classifier Based on Local Information
Authors: Jonathan Serrano-Pérez, L. Enrique Sucar
Subjects: Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)
[5]  arXiv:2405.00166 (cross-list from cs.LG) [pdf, other]
Title: Discovering intrinsic multi-compartment pharmacometric models using Physics Informed Neural Networks
Authors: Imran Nasim, Adam Nasim
Comments: Accepted into the International conference on Scientific Computation and Machine Learning 2024 (SCML 2024)
Subjects: Machine Learning (cs.LG); Artificial Intelligence (cs.AI); Quantitative Methods (q-bio.QM)

Wed, 1 May 2024

[6]  arXiv:2404.19309 [pdf, ps, other]
Title: Noise propagation and MP-PCA image denoising for high-resolution quantitative T2* and magnetic susceptibility mapping (QSM)
Authors: Liad Doniza (1), Mitchel Lee (2), Tamar Blumenfeld Katzir (3), Moran Artzi (4,5,6), Dafna Ben Bashat (4,5,6), Dvir Radunsky (3), Karin Shmueli (2), Noam Ben-Eliezer (3,5,7) ((1) Department of Electrical Engineering, Tel Aviv University, Tel Aviv, Israel, (2) Department of Medical Physics and Biomedical Engineering, University College London, London, UK, (3) Department of Biomedical Engineering, Tel Aviv University, Tel Aviv, Israel, (4) Sagol Brain Institute, Tel Aviv Medical Center, Tel Aviv, Israel, (5) Sagol School of Neuroscience, Tel Aviv University, Tel-Aviv, Israel, (6) Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel, (7) Center for Advanced Imaging Innovation and Research (CAI2R), New-York University Langone Medical Center, New York, NY, United States)
Comments: 9 pages, 8 figures, 3 tables. It was accepted to be presented in a peer-reviewed annual ISMRM meeting, which will be held in Singapore in May 2024
Subjects: Quantitative Methods (q-bio.QM)
[7]  arXiv:2404.18960 [pdf, ps, other]
Title: Leak Proof CMap; a framework for training and evaluation of cell line agnostic L1000 similarity methods
Authors: Steven Shave, Richard Kasprowicz, Abdullah M. Athar, Denise Vlachou, Neil O. Carragher, Cuong Q. Nguyen
Subjects: Quantitative Methods (q-bio.QM); Machine Learning (cs.LG)
[8]  arXiv:2404.19313 (cross-list from quant-ph) [pdf, other]
Title: High-precision chemical quantum sensing in flowing monodisperse microdroplets
Authors: Adrisha Sarkar, Zachary Jones, Madhur Parashar, Emanuel Druga, Amala Akkiraju, Sophie Conti, Pranav Krishnamoorthi, Srisai Nachuri, Parker Aman, Mohammad Hashemi, Nicholas Nunn, Marco Torelli, Benjamin Gilbert, Kevin R. Wilson, Olga Shenderova, Deepti Tanjore, Ashok Ajoy
Subjects: Quantum Physics (quant-ph); Mesoscale and Nanoscale Physics (cond-mat.mes-hall); Applied Physics (physics.app-ph); Quantitative Methods (q-bio.QM)

Tue, 30 Apr 2024

[9]  arXiv:2404.17804 [pdf, other]
Title: Flock2: A model for orientation-based social flocking
Authors: Rama Carl Hoetzlein
Comments: 15 pages (22 /w appendices & refs), 16 images (3 jpg, 13 png) supplementary video: this https URL
Subjects: Quantitative Methods (q-bio.QM); Physics and Society (physics.soc-ph)
[10]  arXiv:2404.18485 (cross-list from q-bio.PE) [pdf, other]
Title: Coupling in situ and remote sensing data to assess $α$- and $β$-diversity over biogeographic gradients
Authors: Maxime Lenormand, Jean-Baptiste Féret, Guillaume Papuga, Samuel Alleaume, Sandra Luque
Comments: 11 pages, 5 figures + Appendix
Subjects: Populations and Evolution (q-bio.PE); Quantitative Methods (q-bio.QM)
[11]  arXiv:2404.18443 (cross-list from cs.CL) [pdf, other]
Title: BMRetriever: Tuning Large Language Models as Better Biomedical Text Retrievers
Authors: Ran Xu, Wenqi Shi, Yue Yu, Yuchen Zhuang, Yanqiao Zhu, May D. Wang, Joyce C. Ho, Chao Zhang, Carl Yang
Comments: Work in progress. The model and data will be uploaded to \url{this https URL}
Subjects: Computation and Language (cs.CL); Artificial Intelligence (cs.AI); Information Retrieval (cs.IR); Quantitative Methods (q-bio.QM)
[12]  arXiv:2404.18267 (cross-list from eess.SY) [pdf, other]
Title: LINOCS: Lookahead Inference of Networked Operators for Continuous Stability
Authors: Noga Mudrik, Eva Yezerets, Yenho Chen, Christopher Rozell, Adam Charles
Comments: under review
Subjects: Systems and Control (eess.SY); Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)
[13]  arXiv:2404.18021 (cross-list from cs.AI) [pdf, other]
Title: CRISPR-GPT: An LLM Agent for Automated Design of Gene-Editing Experiments
Authors: Kaixuan Huang, Yuanhao Qu, Henry Cousins, William A. Johnson, Di Yin, Mihir Shah, Denny Zhou, Russ Altman, Mengdi Wang, Le Cong
Subjects: Artificial Intelligence (cs.AI); Computation and Language (cs.CL); Human-Computer Interaction (cs.HC); Quantitative Methods (q-bio.QM)
[14]  arXiv:2404.17996 (cross-list from cs.DS) [pdf, other]
Title: Variações do Problema de Distância de Rearranjos
Authors: Alexsandro Oliveira Alexandrino
Comments: PhD Dissertation, in Portuguese, presented at the Institute of Computing - Unicamp in March 2024
Subjects: Data Structures and Algorithms (cs.DS); Quantitative Methods (q-bio.QM)
[15]  arXiv:2404.17857 (cross-list from stat.AP) [pdf, other]
Title: Bayesian analysis of biomarker levels can predict time of recurrence of prostate cancer with strictly positive apparent Shannon information against an exponential attrition prior
Authors: Roger Sewell, Elisabeth Crowe, Sharokh F. Shariat
Comments: 16 pages, 8 figures
Subjects: Applications (stat.AP); Quantitative Methods (q-bio.QM)
[16]  arXiv:2403.15352 (cross-list from q-bio.BM) [pdf, other]
Title: Universal Cold RNA Phase Transitions
Authors: Paolo Rissone, Aurelien Severino, Isabel Pastor, Felix Ritort
Comments: Main: 21 pages, 5 figures. Supplementary Info: 29 pages, 10 figures, 6 tables
Subjects: Biomolecules (q-bio.BM); Biological Physics (physics.bio-ph); Quantitative Methods (q-bio.QM); Methodology (stat.ME)

Mon, 29 Apr 2024

[17]  arXiv:2404.17329 [pdf, other]
Title: REvoLd: Ultra-Large Library Screening with an Evolutionary Algorithm in Rosetta
Authors: Paul Eisenhuth, Fabian Liessmann, Rocco Moretti, Jens Meiler
Comments: 29 pages, 9 figures
Subjects: Quantitative Methods (q-bio.QM)
[18]  arXiv:2404.16880 [pdf, other]
Title: Atomas: Hierarchical Alignment on Molecule-Text for Unified Molecule Understanding and Generation
Authors: Yikun Zhang, Geyan Ye, Chaohao Yuan, Bo Han, Long-Kai Huang, Jianhua Yao, Wei Liu, Yu Rong
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Computation and Language (cs.CL)
[19]  arXiv:2404.16866 [pdf, other]
Title: Functional Protein Design with Local Domain Alignment
Authors: Chaohao Yuan, Songyou Li, Geyan Ye, Yikun Zhang, Long-Kai Huang, Wenbing Huang, Wei Liu, Jianhua Yao, Yu Rong
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Machine Learning (cs.LG)
[20]  arXiv:2404.17454 (cross-list from cs.LG) [pdf, other]
Title: Domain Adaptive and Fine-grained Anomaly Detection for Single-cell Sequencing Data and Beyond
Authors: Kaichen Xu, Yueyang Ding, Suyang Hou, Weiqiang Zhan, Nisang Chen, Jun Wang, Xiaobo Sun
Comments: 17 pages, 2 figures. Accepted by IJCAI 2024
Subjects: Machine Learning (cs.LG); Artificial Intelligence (cs.AI); Quantitative Methods (q-bio.QM)
[21]  arXiv:2404.17026 (cross-list from cond-mat.stat-mech) [pdf, other]
Title: Enzymatic Aggregation
Authors: P. L. Krapivsky, S. Redner
Comments: 8 pages, 1 figure
Subjects: Statistical Mechanics (cond-mat.stat-mech); Biological Physics (physics.bio-ph); Chemical Physics (physics.chem-ph); Quantitative Methods (q-bio.QM)

Fri, 26 Apr 2024

[22]  arXiv:2404.16196 [pdf, other]
Title: ApisTox: a new benchmark dataset for the classification of small molecules toxicity on honey bees
Authors: Jakub Adamczyk, Jakub Poziemski, Paweł Siedlecki
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Machine Learning (cs.LG); Biomolecules (q-bio.BM)
[23]  arXiv:2404.16760 (cross-list from math.DS) [pdf, other]
Title: Beyond Boolean networks, a multi-valued approach
Authors: J. García Galofre, M. Pérez Millán, A. Galarza Rial, R. Laubenbacher, A. Dickenstein
Comments: 21 pages
Subjects: Dynamical Systems (math.DS); Quantitative Methods (q-bio.QM)
[24]  arXiv:2404.16397 (cross-list from eess.IV) [pdf, other]
Title: Deep Learning-based Prediction of Breast Cancer Tumor and Immune Phenotypes from Histopathology
Authors: Tiago Gonçalves, Dagoberto Pulido-Arias, Julian Willett, Katharina V. Hoebel, Mason Cleveland, Syed Rakin Ahmed, Elizabeth Gerstner, Jayashree Kalpathy-Cramer, Jaime S. Cardoso, Christopher P. Bridge, Albert E. Kim
Comments: Paper accepted at the First Workshop on Imageomics (Imageomics-AAAI-24) - Discovering Biological Knowledge from Images using AI (this https URL), held as part of the 38th Annual AAAI Conference on Artificial Intelligence (this https URL)
Subjects: Image and Video Processing (eess.IV); Computer Vision and Pattern Recognition (cs.CV); Machine Learning (cs.LG); Quantitative Methods (q-bio.QM)
[ total of 24 entries: 1-24 ]
[ showing up to 25 entries per page: fewer | more ]

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