Quantitative Biology

Authors and titles for April 2020

[501] arXiv:2004.12803 (cross-list from math.OC) [pdf, other]

Title: Fractional SIS epidemic models

Caterina Balzotti, Mirko D'Ovidio, Paola Loreti

Comments: 17 pages, 6 figures

Subjects: Optimization and Control (math.OC); Physics and Society (physics.soc-ph); Populations and Evolution (q-bio.PE)

[502] arXiv:2004.12847 (cross-list from cs.CV) [pdf, other]

Title: A Deep Attentive Convolutional Neural Network for Automatic Cortical Plate Segmentation in Fetal MRI

Haoran Dou, Davood Karimi, Caitlin K. Rollins, Cynthia M. Ortinau, Lana Vasung, Clemente Velasco-Annis, Abdelhakim Ouaalam, Xin Yang, Dong Ni, Ali Gholipour

Comments: Accepted by IEEE Transactions on Medical Imaging

Subjects: Computer Vision and Pattern Recognition (cs.CV); Image and Video Processing (eess.IV); Quantitative Methods (q-bio.QM)

[503] arXiv:2004.12852 (cross-list from cs.CV) [pdf, other]

Title: AI-Driven CT-based quantification, staging and short-term outcome prediction of COVID-19 pneumonia

Guillaume Chassagnon, Maria Vakalopoulou, Enzo Battistella, Stergios Christodoulidis, Trieu-Nghi Hoang-Thi, Severine Dangeard, Eric Deutsch, Fabrice Andre, Enora Guillo, Nara Halm, Stefany El Hajj, Florian Bompard, Sophie Neveu, Chahinez Hani, Ines Saab, Alienor Campredon, Hasmik Koulakian, Souhail Bennani, Gael Freche, Aurelien Lombard, Laure Fournier, Hippolyte Monnier, Teodor Grand, Jules Gregory, Antoine Khalil, Elyas Mahdjoub, Pierre-Yves Brillet, Stephane Tran Ba, Valerie Bousson, Marie-Pierre Revel, Nikos Paragios

Subjects: Computer Vision and Pattern Recognition (cs.CV); Machine Learning (cs.LG); Image and Video Processing (eess.IV); Medical Physics (physics.med-ph); Quantitative Methods (q-bio.QM)

[504] arXiv:2004.12926 (cross-list from cs.CY) [pdf, other]

Title: A New Age of Computing and the Brain

Polina Golland, Jack Gallant, Greg Hager, Hanspeter Pfister, Christos Papadimitriou, Stefan Schaal, Joshua T. Vogelstein

Comments: A Computing Community Consortium (CCC) workshop report, 24 pages

Subjects: Computers and Society (cs.CY); Artificial Intelligence (cs.AI); Neurons and Cognition (q-bio.NC)

[505] arXiv:2004.13066 (cross-list from cs.LG) [pdf, other]

Title: Application of Deep Interpolation Network for Clustering of Physiologic Time Series

Yanjun Li (4) (5), Yuanfang Ren (1) (5), Tyler J. Loftus (2,5), Shounak Datta (1) (5), M. Ruppert (1) (5), Ziyuan Guan (1) (5), Dapeng Wu (4), Parisa Rashidi (3) (5), Tezcan Ozrazgat-Baslanti (1) (5) (6), Azra Bihorac (3) (5) (6) ((1) Department of Medicine, Division of Nephrology, Hypertension, and Renal Transplantation, University of Florida, Gainesville, FL. (2) Department of Surgery, University of Florida, Gainesville, FL. (3) J. Crayton Pruitt Family Department of Biomedical Engineering, University of Florida, Gainesville, FL. (4) NSF Center for Big Learning, University of Florida, Gainesville, FL. (5) Precision and Intelligent Systems in Medicine (PrismaP), University of Florida, Gainesville, FL (6) Sepsis and Critical Illness Research Center, University of Florida, Gainesville, FL. )

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

[506] arXiv:2004.13167 (cross-list from cs.LG) [pdf, other]

Title: Energy-based models for atomic-resolution protein conformations

Yilun Du, Joshua Meier, Jerry Ma, Rob Fergus, Alexander Rives

Comments: Accepted to ICLR 2020

Journal-ref: International Conference on Learning Representations (ICLR), 2020

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

[507] arXiv:2004.13376 (cross-list from econ.TH) [pdf, other]

Title: Multinomial logit processes and preference discovery: inside and outside the black box

Simone Cerreia-Vioglio, Fabio Maccheroni, Massimo Marinacci, Aldo Rustichini

Subjects: Theoretical Economics (econ.TH); Neurons and Cognition (q-bio.NC)

[508] arXiv:2004.13488 (cross-list from physics.soc-ph) [pdf, other]

Title: Nota T\'ecnica dos Modelos Implementados pelo Coletivo Covid19br para Proje\c{c}\~oes de Cen\'arios Futuros da Pandemia COVID-19 no Brasil

Daniel Severo, Giuliano Netto Flores Cruz, Alcides Carlos de Araújo, André Marques dos Santos, André Luiz Nunes Martins, Carolina Ferreira da Silva, Cristiane Schmitz, Felipe Brum de Brito Sousa, Gabriel Domingos de Arruda, Gabriel Mendes Cabral Gondim, Giovanna Ferraresso, Joao Ricardo Vissoci, Marcel Figueredo S. Figueredo, Rafael Prudencio Moreira, Ralf Lima da Costa, Vito Ribeiro Venturieri, Diógenes Adriano Rizzoto Justo

Comments: 12 páginas, in Portuguese, 4 figuras, acesso público aos modelos: this http URL

Subjects: Physics and Society (physics.soc-ph); Populations and Evolution (q-bio.PE)

[509] arXiv:2004.13532 (cross-list from cs.NE) [pdf, other]

Title: Integration of Leaky-Integrate-and-Fire-Neurons in Deep Learning Architectures

Richard C. Gerum, Achim Schilling

Journal-ref: Neural Computation (2021) 33 (10)

Subjects: Neural and Evolutionary Computing (cs.NE); Machine Learning (cs.LG); Neurons and Cognition (q-bio.NC)

[510] arXiv:2004.13553 (cross-list from physics.soc-ph) [pdf, other]

Title: Universal Masking is Urgent in the COVID-19 Pandemic: SEIR and Agent Based Models, Empirical Validation, Policy Recommendations

De Kai, Guy-Philippe Goldstein, Alexey Morgunov, Vishal Nangalia, Anna Rotkirch

Comments: 19 pages, 8 figures

Subjects: Physics and Society (physics.soc-ph); Artificial Intelligence (cs.AI); Populations and Evolution (q-bio.PE)

[511] arXiv:2004.13630 (cross-list from eess.IV) [pdf, other]

Title: TRAKO: Efficient Transmission of Tractography Data for Visualization

Daniel Haehn, Loraine Franke, Fan Zhang, Suheyla Cetin Karayumak, Steve Pieper, Lauren O'Donnell, Yogesh Rathi

Subjects: Image and Video Processing (eess.IV); Computer Vision and Pattern Recognition (cs.CV); Graphics (cs.GR); Quantitative Methods (q-bio.QM)

[512] arXiv:2004.13689 (cross-list from stat.AP) [pdf, other]

Title: A Bayesian binomial regression model with latent Gaussian processes for modelling DNA methylation

Aliaksandr Hubin, Geir O Storvik, Paul E Grini, Melinka A Butenko

Comments: 10 pages, 3 tables, 3 figures

Journal-ref: Austrian Journal of Statistics, 2020, 49(4), 46-56

Subjects: Applications (stat.AP); Genomics (q-bio.GN); Quantitative Methods (q-bio.QM); Methodology (stat.ME)

[513] arXiv:2004.14163 (cross-list from math.PR) [pdf, other]

Title: Dynamics of an imprecise stochastic multimolecular biochemical reaction model with L\'{e}vy jumps

Fei Sun

Comments: arXiv admin note: substantial text overlap with arXiv:2004.04307

Subjects: Probability (math.PR); Populations and Evolution (q-bio.PE)

[514] arXiv:2004.14185 (cross-list from eess.SP) [pdf, other]

Title: Augmenting interictal mapping with neurovascular coupling biomarkers by structured factorization of epileptic EEG and fMRI data

Simon Van Eyndhoven, Patrick Dupont, Simon Tousseyn, Nico Vervliet, Wim Van Paesschen, Sabine Van Huffel, Borbála Hunyadi

Subjects: Signal Processing (eess.SP); Machine Learning (cs.LG); Neurons and Cognition (q-bio.NC)

[515] arXiv:2004.14462 (cross-list from eess.IV) [pdf, other]

Title: Manual segmentation versus semi-automated segmentation for quantifying vestibular schwannoma volume on MRI

Hari McGrath, Peichao Li, Reuben Dorent, Robert Bradford, Shakeel Saeed, Sotirios Bisdas, Sebastien Ourselin, Jonathan Shapey, Tom Vercauteren

Comments: 15 pages, 5 figures

Subjects: Image and Video Processing (eess.IV); Medical Physics (physics.med-ph); Quantitative Methods (q-bio.QM)

[516] arXiv:2004.14842 (cross-list from cs.LG) [pdf, other]

Title: Modeling Pharmacological Effects with Multi-Relation Unsupervised Graph Embedding

Dehua Chen, Amir Jalilifard, Adriano Veloso, Nivio Ziviani

Comments: Accepted at IJCNN 2020

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

[517] arXiv:2004.14940 (cross-list from physics.soc-ph) [pdf, other]

Title: The resumption of sports competitions after COVID-19 lockdown: The case of the Spanish football league

Javier M. Buldú, Daniel R. Antequera, Jacobo Aguirre

Subjects: Physics and Society (physics.soc-ph); Populations and Evolution (q-bio.PE)