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Quantitative Biology

Authors and titles for recent submissions, skipping first 50

[ total of 78 entries: 1-25 | 26-50 | 51-75 | 76-78 ]
[ showing 25 entries per page: fewer | more | all ]

Fri, 3 May 2024 (continued, showing last 15 of 19 entries)

[51]  arXiv:2405.00810 [pdf, other]
Title: A Simple Comparison of Biochemical Systems Theory and Metabolic Control Analysis
Authors: Herbert M Sauro
Subjects: Molecular Networks (q-bio.MN); Quantitative Methods (q-bio.QM); Subcellular Processes (q-bio.SC)
[52]  arXiv:2405.00753 [pdf, other]
Title: HMAMP: Hypervolume-Driven Multi-Objective Antimicrobial Peptides Design
Authors: Li Wang, Yiping Li, Xiangzheng Fu, Xiucai Ye, Junfeng Shi, Gary G. Yen, Xiangxiang Zeng
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI)
[53]  arXiv:2405.00751 [pdf, other]
Title: F$^3$low: Frame-to-Frame Coarse-grained Molecular Dynamics with SE(3) Guided Flow Matching
Authors: Shaoning Li, Yusong Wang, Mingyu Li, Jian Zhang, Bin Shao, Nanning Zheng, Jian Tang
Comments: Accepted by ICLR 2024 GEM workshop
Subjects: Quantitative Methods (q-bio.QM); Artificial Intelligence (cs.AI); Machine Learning (cs.LG)
[54]  arXiv:2405.00702 [pdf, ps, other]
Title: Cold plasma treatment boosts barley germination and seedling vigor: Insights into soluble sugar, starch, and protein modifications
Authors: Mohamed Ali Benabderrahim, Imen Bettaieb, Hédia Hannachi, Mokhtar Rejili, Thierry Dufour
Journal-ref: Journal of Cereal Science, Vol. 116, 103852 (2024)
Subjects: Other Quantitative Biology (q-bio.OT)
[55]  arXiv:2405.01437 (cross-list from cs.GT) [pdf, other]
Title: Two competing populations with a common environmental resource
Authors: Keith Paarporn, James Nelson
Comments: Submission to CDC 24
Subjects: Computer Science and Game Theory (cs.GT); Systems and Control (eess.SY); Populations and Evolution (q-bio.PE)
[56]  arXiv:2405.01155 (cross-list from cs.LG) [pdf, other]
Title: SynFlowNet: Towards Molecule Design with Guaranteed Synthesis Pathways
Authors: Miruna Cretu, Charles Harris, Julien Roy, Emmanuel Bengio, Pietro Liò
Comments: Presented at ICLR 2024 GEM Workshop
Subjects: Machine Learning (cs.LG); Biomolecules (q-bio.BM)
[57]  arXiv:2405.01105 (cross-list from cs.CV) [pdf, other]
Title: Image segmentation of treated and untreated tumor spheroids by Fully Convolutional Networks
Authors: Matthias Streller, Soňa Michlíková, Willy Ciecior, Katharina Lönnecke, Leoni A. Kunz-Schughart, Steffen Lange, Anja Voss-Böhme
Comments: 28 pages, 21 figures
Subjects: Computer Vision and Pattern Recognition (cs.CV); Quantitative Methods (q-bio.QM); Tissues and Organs (q-bio.TO)
[58]  arXiv:2405.01015 (cross-list from stat.ML) [pdf, other]
Title: Network reconstruction via the minimum description length principle
Authors: Tiago P. Peixoto
Comments: 17 pages, 10 figures. Code and documentation are available at this https URL
Subjects: Machine Learning (stat.ML); Machine Learning (cs.LG); Social and Information Networks (cs.SI); Data Analysis, Statistics and Probability (physics.data-an); Populations and Evolution (q-bio.PE)
[59]  arXiv:2405.00972 (cross-list from cs.CL) [pdf, other]
Title: CACTUS: Chemistry Agent Connecting Tool-Usage to Science
Authors: Andrew D. McNaughton, Gautham Ramalaxmi, Agustin Kruel, Carter R. Knutson, Rohith A. Varikoti, Neeraj Kumar
Subjects: Computation and Language (cs.CL); Artificial Intelligence (cs.AI); Machine Learning (cs.LG); Chemical Physics (physics.chem-ph); Quantitative Methods (q-bio.QM)
[60]  arXiv:2405.00949 (cross-list from cs.LG) [pdf, other]
Title: The Role of Model Architecture and Scale in Predicting Molecular Properties: Insights from Fine-Tuning RoBERTa, BART, and LLaMA
Authors: Lee Youngmin, Lang S.I.D. Andrew, Cai Duoduo, Wheat R. Stephen
Subjects: Machine Learning (cs.LG); Computation and Language (cs.CL); Chemical Physics (physics.chem-ph); Biomolecules (q-bio.BM)
[61]  arXiv:2405.00899 (cross-list from cs.HC) [pdf, other]
Title: Characterising the Creative Process in Humans and Large Language Models
Authors: Surabhi S. Nath, Peter Dayan, Claire Stevenson
Subjects: Human-Computer Interaction (cs.HC); Artificial Intelligence (cs.AI); Computation and Language (cs.CL); Neurons and Cognition (q-bio.NC)
[62]  arXiv:2405.00833 (cross-list from eess.SP) [pdf, other]
Title: Modelling the nanopore sequencing process with Helicase HMMs
Authors: Xuechun Xu, Joakim Jaldén
Comments: 8 pages, 7 figures and 1 table. Journal manuscript
Subjects: Signal Processing (eess.SP); Genomics (q-bio.GN)
[63]  arXiv:2405.00817 (cross-list from cond-mat.stat-mech) [pdf, other]
Title: Chaotic behavior in Lotka-Volterra and May-Leonard models of biodiversity
Authors: D. Bazeia, M. Bongestab, B. F. de Oliveira
Comments: 8 pages, 7 figures, to appear in Chaos: An Interdisciplinary Journal of Nonlinear Science
Subjects: Statistical Mechanics (cond-mat.stat-mech); Physics and Society (physics.soc-ph); Populations and Evolution (q-bio.PE)
[64]  arXiv:2405.00719 (cross-list from eess.SP) [pdf, other]
Title: EEG-Deformer: A Dense Convolutional Transformer for Brain-computer Interfaces
Authors: Yi Ding, Yong Li, Hao Sun, Rui Liu, Chengxuan Tong, Cuntai Guan
Comments: 10 pages, 9 figures. This work has been submitted to the IEEE for possible publication. Copyright may be transferred without notice, after which this version may no longer be accessible
Subjects: Signal Processing (eess.SP); Machine Learning (cs.LG); Neurons and Cognition (q-bio.NC)
[65]  arXiv:2405.00679 (cross-list from cs.NE) [pdf, other]
Title: Exploring mechanisms of Neural Robustness: probing the bridge between geometry and spectrum
Authors: Konstantin Holzhausen, Mia Merlid, Håkon Olav Torvik, Anders Malthe-Sørenssen, Mikkel Elle Lepperød
Subjects: Neural and Evolutionary Computing (cs.NE); Artificial Intelligence (cs.AI); Neurons and Cognition (q-bio.NC)

Thu, 2 May 2024 (showing first 10 of 13 entries)

[66]  arXiv:2405.00541 [pdf, other]
Title: New Trends on the Systems Approach to Modeling SARS-CoV-2 Pandemics in a Globally Connected Planet
Authors: Giulia Bertaglia, Andrea Bondesan, Diletta Burini, Raluca Eftimie, Lorenzo Pareschi, Giuseppe Toscani
Subjects: Populations and Evolution (q-bio.PE); Adaptation and Self-Organizing Systems (nlin.AO); Physics and Society (physics.soc-ph)
[67]  arXiv:2405.00530 [pdf, ps, other]
Title: The Highly Durable Antibacterial Gel-like Coatings for Textiles
Authors: Seyedali Mirmohammadsadeghi, Davis Juhas, Mikhail Parker, Kristina Peranidze, Dwight Austin Van Horn, Aayushi Sharma, Dhruvi Patel, Tatyana A. Sysoeva, Vladislav Klepov, Vladimir Reukov
Subjects: Tissues and Organs (q-bio.TO)
[68]  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)
[69]  arXiv:2405.00333 [pdf, other]
Title: Reevaluating coexistence and stability in ecosystem networks to address ecological transients: methods and implications
Authors: Sarah A. Vollert, Christopher Drovandi, Matthew P. Adams
Subjects: Populations and Evolution (q-bio.PE); Applications (stat.AP)
[70]  arXiv:2405.00255 [pdf, other]
Title: Reliability and predictability of phenotype information from functional connectivity in large imaging datasets
Authors: Jessica Dafflon, Dustin Moraczewski, Eric Earl, Dylan M. Nielson, Gabriel Loewinger, Patrick McClure, Adam G. Thomas, Francisco Pereira
Subjects: Neurons and Cognition (q-bio.NC)
[71]  arXiv:2405.00159 [pdf, other]
Title: Heterogeneity analysis provides evidence for a genetically homogeneous subtype of bipolar-disorder
Authors: Caroline C. McGrouther, Aaditya V. Rangan, Arianna Di Florio, Jeremy A. Elman, Nicholas J. Schork, John Kelsoe
Subjects: Genomics (q-bio.GN)
[72]  arXiv:2405.00128 [pdf, other]
Title: Target-Specific De Novo Peptide Binder Design with DiffPepBuilder
Authors: Fanhao Wang, Yuzhe Wang, Laiyi Feng, Changsheng Zhang, Luhua Lai
Subjects: Biomolecules (q-bio.BM)
[73]  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)
[74]  arXiv:2405.00577 (cross-list from cs.LG) [pdf, ps, other]
Title: Discovering robust biomarkers of neurological disorders from functional MRI using graph neural networks: A Review
Authors: Yi Hao Chan, Deepank Girish, Sukrit Gupta, Jing Xia, Chockalingam Kasi, Yinan He, Conghao Wang, Jagath C. Rajapakse
Subjects: Machine Learning (cs.LG); Signal Processing (eess.SP); Neurons and Cognition (q-bio.NC)
[75]  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)
[ total of 78 entries: 1-25 | 26-50 | 51-75 | 76-78 ]
[ showing 25 entries per page: fewer | more | all ]

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