Works matching IS 1553734X AND DT 2024 AND VI 20 AND IP 5

Results: 75

Astrocytes as a mechanism for contextually-guided network dynamics and function.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012186

By:

Gong, Lulu;
Pasqualetti, Fabio;
Papouin, Thomas;
Ching, ShiNung

Publication type:

Article

Disentangling the effects of metabolic cost and accuracy on movement speed.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012169

By:

Bruening, Garrick W.;
Courter, Robert J.;
Sukumar, Shruthi;
O'Brien, Megan K.;
Ahmed, Alaa A.

Publication type:

Article

Evaluating targeted COVID-19 vaccination strategies with agent-based modeling.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012128

By:

Hladish, Thomas J.;
Pillai, Alexander N.;
Pearson, Carl A. B.;
Toh, Kok Ben;
Tamayo, Andrea C.;
Stoltzfus, Arlin;
Longini, Ira M.

Publication type:

Article

Estimating receptive fields of simple and complex cells in early visual cortex: A convolutional neural network model with parameterized rectification.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012127

By:

Nguyen, Philippe;
Sooriyaarachchi, Jinani;
Huang, Qianyu;
Baker Jr., Curtis L.

Publication type:

Article

Modeling spatial evolution of multi-drug resistance under drug environmental gradients.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012098

By:

Freire, Tomas Ferreira Amaro;
Hu, Zhijian;
Wood, Kevin B.;
Gjini, Erida

Publication type:

Article

How well do models of visual cortex generalize to out of distribution samples?

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1011145

By:

Ren, Yifei;
Bashivan, Pouya

Publication type:

Article

Temporal dynamics of short-term neural adaptation across human visual cortex.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012161

By:

Brands, Amber Marijn;
Devore, Sasha;
Devinsky, Orrin;
Doyle, Werner;
Flinker, Adeen;
Friedman, Daniel;
Dugan, Patricia;
Winawer, Jonathan;
Groen, Iris Isabelle Anna

Publication type:

Article

The evolution of environmentally mediated social interactions and posthumous spite under isolation by distance.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012071

By:

Mullon, Charles;
Peña, Jorge;
Lehmann, Laurent

Publication type:

Article

Pairtools: From sequencing data to chromosome contacts.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012164

By:

Abdennur, Nezar;
Fudenberg, Geoffrey;
Flyamer, Ilya M.;
Galitsyna, Aleksandra A.;
Goloborodko, Anton;
Imakaev, Maxim;
Venev, Sergey V.

Publication type:

Article

Leveraging conformal prediction to annotate enzyme function space with limited false positives.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012135

By:

Ding, Kerr;
Luo, Jiaqi;
Luo, Yunan

Publication type:

Article

Mathematical modeling of the evolution of resistance and aggressiveness of high-grade serous ovarian cancer from patient CA-125 time series.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012073

By:

Jitmana, Kanyarat;
Griffiths, Jason I.;
Fereday, Sian;
DeFazio, Anna;
Bowtell, David;
Adler, Frederick R.

Publication type:

Article

Clustering and visualization of single-cell RNA-seq data using path metrics.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012014

By:

Manousidaki, Andriana;
Little, Anna;
Xie, Yuying

Publication type:

Article

Surprise-minimization as a solution to the structural credit assignment problem.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012175

By:

Wurm, Franz;
Ernst, Benjamin;
Steinhauser, Marco

Publication type:

Article

Estimating mutation rates under heterogeneous stress responses.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012146

By:

Lansch-Justen, Lucy;
El Karoui, Meriem;
Alexander, Helen K.

Publication type:

Article

Modelling midline shift and ventricle collapse in cerebral oedema following acute ischaemic stroke.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012145

By:

Chen, Xi;
Józsa, Tamás I.;
Cardim, Danilo;
Robba, Chiara;
Czosnyka, Marek;
Payne, Stephen J.

Publication type:

Article

The impact of health inequity on spatial variation of COVID-19 transmission in England.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012141

By:

Rawson, Thomas;
Hinsley, Wes;
Sonabend, Raphael;
Semenova, Elizaveta;
Cori, Anne;
Ferguson, Neil M

Publication type:

Article

Systematic evaluation of lecithin:Cholesterol acyltransferase binding sites in apolipoproteins via peptide based nanodiscs: Regulatory role of charged residues at positions 4 and 7.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012137

By:

Niemelä, Akseli;
Koivuniemi, Artturi

Publication type:

Article

MGDrivE 3: A decoupled vector-human framework for epidemiological simulation of mosquito genetic control tools and their surveillance.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012133

By:

Mondal, Agastya;
Sánchez C., Héctor M.;
Marshall, John M.

Publication type:

Article

An extension of the Walsh-Hadamard transform to calculate and model epistasis in genetic landscapes of arbitrary shape and complexity.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012132

By:

Faure, Andre J.;
Lehner, Ben;
Miró Pina, Verónica;
Serrano Colome, Claudia;
Weghorn, Donate

Publication type:

Article

Dorsal and median raphe neuronal firing dynamics characterized by nonlinear measures.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012111

By:

Rognoni, Claudia Pascovich;
Serantes, Diego;
Rodriguez, Alejo;
Mateos, Diego;
González, Joaquín;
Gallo, Diego;
Rivas, Mayda;
Devera, Andrea;
Lagos, Patricia;
Rubido, Nicolás;
Torterolo, Pablo

Publication type:

Article

Adaptive modeling and inference of higher-order coordination in neuronal assemblies: A dynamic greedy estimation approach.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1011605

By:

Mukherjee, Shoutik;
Babadi, Behtash

Publication type:

Article

Transferable deep generative modeling of intrinsically disordered protein conformations.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012144

By:

Janson, Giacomo;
Feig, Michael

Publication type:

Article

Learning with sparse reward in a gap junction network inspired by the insect mushroom body.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012086

By:

Wei, Tianqi;
Guo, Qinghai;
Webb, Barbara

Publication type:

Article

Diverse task-driven modeling of macaque V4 reveals functional specialization towards semantic tasks.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012056

By:

Cadena, Santiago A.;
Willeke, Konstantin F.;
Restivo, Kelli;
Denfield, George;
Sinz, Fabian H.;
Bethge, Matthias;
Tolias, Andreas S.;
Ecker, Alexander S.

Publication type:

Article

Modeling oxygen transport in the brain: An efficient coarse-grid approach to capture perivascular gradients in the parenchyma.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1011973

By:

Pastor-Alonso, David;
Berg, Maxime;
Boyer, Franck;
Fomin-Thunemann, Natalie;
Quintard, Michel;
Davit, Yohan;
Lorthois, Sylvie

Publication type:

Article

Competition between physical search and a weak-to-strong transition rate-limits kinesin binding times.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012158

By:

Nguyen, Trini;
Narayanareddy, Babu Reddy Janakaloti;
Gross, Steven P.;
Miles, Christopher E.

Publication type:

Article

A computational analysis of the role of integrins and Rho-GTPases in the emergence and disruption of apical-basal polarization in renal epithelial cells.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012140

By:

Hagelaars, Maria J.;
Nikolic, Milica;
Vermeulen, Maud;
Dekker, Sylvia;
Bouten, Carlijn V. C.;
Loerakker, Sandra

Publication type:

Article

Krisp: A Python package to aid in the design of CRISPR and amplification-based diagnostic assays from whole genome sequencing data.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012139

By:

Foster, Zachary S. L.;
Tupper, Andrew S.;
Press, Caroline M.;
Grünwald, Niklaus J.

Publication type:

Article

A multimodal Transformer Network for protein-small molecule interactions enhances predictions of kinase inhibition and enzyme-substrate relationships.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012100

By:

Kroll, Alexander;
Ranjan, Sahasra;
Lercher, Martin J.

Publication type:

Article

Versatile multiple object tracking in sparse 2D/3D videos via deformable image registration.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012075

By:

Ryu, James;
Nejatbakhsh, Amin;
Torkashvand, Mahdi;
Gangadharan, Sahana;
Seyedolmohadesin, Maedeh;
Kim, Jinmahn;
Paninski, Liam;
Venkatachalam, Vivek

Publication type:

Article

Inferring fungal growth rates from optical density data.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012105

By:

Hameed, Tara;
Motsi, Natasha;
Bignell, Elaine;
Tanaka, Reiko J.

Publication type:

Article

Where's Whaledo: A software toolkit for array localization of animal vocalizations.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1011456

By:

Snyder, Eric R.;
Solsona-Berga, Alba;
Baumann-Pickering, Simone;
Frasier, Kait E.;
Wiggins, Sean M.;
Hildebrand, John A.

Publication type:

Article

A dose-response model for statistical analysis of chemical genetic interactions in CRISPRi screens.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1011408

By:

Choudhery, Sanjeevani;
DeJesus, Michael A.;
Srinivasan, Aarthi;
Rock, Jeremy;
Schnappinger, Dirk;
Ioerger, Thomas R.

Publication type:

Article

Learning Micro-C from Hi-C with diffusion models.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012136

By:

Liu, Tong;
Zhu, Hao;
Wang, Zheng

Publication type:

Article

Real-time forecasting of COVID-19-related hospital strain in France using a non-Markovian mechanistic model.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012124

By:

Massey, Alexander;
Boennec, Corentin;
Restrepo-Ortiz, Claudia Ximena;
Blanchet, Christophe;
Alizon, Samuel;
Sofonea, Mircea T.

Publication type:

Article

Interpretable metric learning in comparative metagenomics: The adaptive Haar-like distance.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1011543

By:

Gorman, Evan D.;
Lladser, Manuel E.

Publication type:

Article

Interpretable online network dictionary learning for inferring long-range chromatin interactions.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012095

By:

Rana, Vishal;
Peng, Jianhao;
Pan, Chao;
Lyu, Hanbaek;
Cheng, Albert;
Kim, Minji;
Milenkovic, Olgica

Publication type:

Article

Liebig's law of the minimum in the TGF-β/SMAD pathway.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012072

By:

Li, Yuchao;
Deng, Difan;
Höfer, Chris Tina;
Kim, Jihye;
Do Heo, Won;
Xu, Quanbin;
Liu, Xuedong;
Zi, Zhike

Publication type:

Article

Foraging in a non-foraging task: Fitness maximization explains human risk preference dynamics under changing environment.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012080

By:

Mochizuki, Yasuhiro;
Harasawa, Norihiro;
Aggarwal, Mayank;
Chen, Chong;
Fukuda, Haruaki

Publication type:

Article

Biodiversity is enhanced by sequential resource utilization and environmental fluctuations via emergent temporal niches.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012049

By:

Bloxham, Blox;
Lee, Hyunseok;
Gore, Jeff

Publication type:

Article

Identification of Low-Complexity Domains by Compositional Signatures Reveals Class-Specific Frequencies and functions across the domains of life.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1011372

By:

Cascarina, Sean M.;
Ross, Eric D.

Publication type:

Article

Data–driven modelling makes quantitative predictions regarding bacteria surface motility.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012063

By:

Barton, Daniel L.;
Chang, Yow-Ren;
Ducker, William;
Dobnikar, Jure

Publication type:

Article

Ten simple rules for teaching an introduction to R.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012018

By:

Hoffman, Ava M.;
Wright, Carrie

Publication type:

Article

Nuclear export is a limiting factor in eukaryotic mRNA metabolism.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012059

By:

Müller, Jason M.;
Moos, Katharina;
Baar, Till;
Maier, Kerstin C.;
Zumer, Kristina;
Tresch, Achim

Publication type:

Article

Marmosets mutually compensate for differences in rhythms when coordinating vigilance.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012104

By:

Phaniraj, Nikhil;
Brügger, Rahel K.;
Burkart, Judith M.

Publication type:

Article

Artificial neural networks for model identification and parameter estimation in computational cognitive models.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012119

By:

Rmus, Milena;
Pan, Ti-Fen;
Xia, Liyu;
Collins, Anne G. E.

Publication type:

Article

Structural and practical identifiability of contrast transport models for DCE-MRI.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012106

By:

Conte, Martina;
Woodall, Ryan T.;
Gutova, Margarita;
Chen, Bihong T.;
Shiroishi, Mark S.;
Brown, Christine E.;
Munson, Jennifer M.;
Rockne, Russell C.

Publication type:

Article

Network representation of multicellular activity in pancreatic islets: Technical considerations for functional connectivity analysis.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012130

By:

Šterk, Marko;
Zhang, Yaowen;
Pohorec, Viljem;
Leitgeb, Eva Paradiž;
Dolenšek, Jurij;
Benninger, Richard K. P.;
Stožer, Andraž;
Kravets, Vira;
Gosak, Marko

Publication type:

Article

What can we learn when fitting a simple telegraph model to a complex gene expression model?

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012118

By:

Jiao, Feng;
Li, Jing;
Liu, Ting;
Zhu, Yifeng;
Che, Wenhao;
Bleris, Leonidas;
Jia, Chen

Publication type:

Article

Learning with filopodia and spines: Complementary strong and weak competition lead to specialized, graded, and protected receptive fields.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 5, p. 1, doi. 10.1371/journal.pcbi.1012110

By:

Albesa-González, Albert;
Clopath, Claudia

Publication type:

Article