Works matching IS 1553734X AND DT 2021 AND VI 17 AND IP 7

Results: 92

Selection of stimulus parameters for enhancing slow wave sleep events with a neural-field theory thalamocortical model.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1008758

By:

Torres, Felipe A.;
Orio, Patricio;
Escobar, María-José

Publication type:

Article

Modeling of DNA binding to the condensin hinge domain using molecular dynamics simulations guided by atomic force microscopy.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009265

By:

Koide, Hiroki;
Kodera, Noriyuki;
Bisht, Shveta;
Takada, Shoji;
Terakawa, Tsuyoshi

Publication type:

Article

Rational design of complex phenotype via network models.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009189

By:

Gameiro, Marcio;
Gedeon, Tomáš;
Kepley, Shane;
Mischaikow, Konstantin

Publication type:

Article

Noise suppression in stochastic genetic circuits using PID controllers.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009249

By:

Modi, Saurabh;
Dey, Supravat;
Singh, Abhyudai

Publication type:

Article

A model of resource partitioning between foraging bees based on learning.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009260

By:

Dubois, Thibault;
Pasquaretta, Cristian;
Barron, Andrew B.;
Gautrais, Jacques;
Lihoreau, Mathieu

Publication type:

Article

Theta-gamma coupling emerges from spatially heterogeneous cholinergic neuromodulation.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009235

By:

Yang, Yihao;
Gritton, Howard;
Sarter, Martin;
Aton, Sara J.;
Booth, Victoria;
Zochowski, Michal

Publication type:

Article

Gene name errors: Lessons not learned.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1008984

By:

Abeysooriya, Mandhri;
Soria, Megan;
Kasu, Mary Sravya;
Ziemann, Mark

Publication type:

Article

Beyond the chemical master equation: Stochastic chemical kinetics coupled with auxiliary processes.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009214

By:

Lunz, Davin;
Batt, Gregory;
Ruess, Jakob;
Bonnans, J. Frédéric

Publication type:

Article

Multidimensional analysis of immune responses identified biomarkers of recent Mycobacterium tuberculosis infection.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009197

By:

Lloyd, Tessa;
Steigler, Pia;
Mpande, Cheleka A. M.;
Rozot, Virginie;
Mosito, Boitumelo;
Schreuder, Constance;
Reid, Timothy D.;
Hatherill, Mark;
Scriba, Thomas J.;
Little, Francesca;
Nemes, Elisa

Publication type:

Article

A Keller-Segel model for C elegans L1 aggregation.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009231

By:

Avery, Leon;
Ingalls, Brian;
Dumur, Catherine;
Artyukhin, Alexander

Publication type:

Article

Accurate influenza forecasts using type-specific incidence data for small geographic units.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009230

By:

Turtle, James;
Riley, Pete;
Ben-Nun, Michal;
Riley, Steven

Publication type:

Article

Mathematical modeling of N-803 treatment in SIV-infected non-human primates.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009204

By:

Cody, Jonathan W.;
Ellis-Connell, Amy L.;
O'Connor, Shelby L.;
Pienaar, Elsje

Publication type:

Article

Modelling the visual world of a velvet worm.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1008808

By:

Ljungholm, Mikael;
Nilsson, Dan-E.

Publication type:

Article

Machine learning reveals mesenchymal breast carcinoma cell adaptation in response to matrix stiffness.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009193

By:

Rozova, Vlada S.;
Anwer, Ayad G.;
Guller, Anna E.;
Es, Hamidreza Aboulkheyr;
Khabir, Zahra;
Sokolova, Anastasiya I.;
Gavrilov, Maxim U.;
Goldys, Ewa M.;
Warkiani, Majid Ebrahimi;
Thiery, Jean Paul;
Zvyagin, Andrei V.

Publication type:

Article

Evolution to alternative levels of stable diversity leaves areas of niche space unexplored.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1008650

By:

Rubin, Ilan N.;
Ispolatov, Iaroslav;
Doebeli, Michael

Publication type:

Article

The kinetic landscape of nucleosome assembly: A coarse-grained molecular dynamics study.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009253

By:

Brandani, Giovanni B.;
Tan, Cheng;
Takada, Shoji

Publication type:

Article

Computational Eurotransplant kidney allocation simulations demonstrate the feasibility and benefit of T-cell epitope matching.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009248

By:

Niemann, Matthias;
Lachmann, Nils;
Geneugelijk, Kirsten;
Spierings, Eric

Publication type:

Article

Modeling Na<sub>V</sub>1.1/SCN1A sodium channel mutations in a microcircuit with realistic ion concentration dynamics suggests differential GABAergic mechanisms leading to hyperexcitability in epilepsy and hemiplegic migraine.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009239

By:

Lemaire, Louisiane;
Desroches, Mathieu;
Krupa, Martin;
Pizzamiglio, Lara;
Scalmani, Paolo;
Mantegazza, Massimo

Publication type:

Article

Integrating systemic and molecular levels to infer key drivers sustaining metabolic adaptations.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009234

By:

de Atauri, Pedro;
Tarrado-Castellarnau, Míriam;
Tarragó-Celada, Josep;
Foguet, Carles;
Karakitsou, Effrosyni;
Centelles, Josep Joan;
Cascante, Marta

Publication type:

Article

Emergence of directional bias in tau deposition from axonal transport dynamics.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009258

By:

Torok, Justin;
Maia, Pedro D.;
Verma, Parul;
Mezias, Christopher;
Raj, Ashish

Publication type:

Article

Perturbations in dynamical models of whole-brain activity dissociate between the level and stability of consciousness.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009139

By:

Sanz Perl, Yonatan;
Pallavicini, Carla;
Pérez Ipiña, Ignacio;
Demertzi, Athena;
Bonhomme, Vincent;
Martial, Charlotte;
Panda, Rajanikant;
Annen, Jitka;
Ibañez, Agustin;
Kringelbach, Morten;
Deco, Gustavo;
Laufs, Helmut;
Sitt, Jacobo;
Laureys, Steven;
Tagliazucchi, Enzo

Publication type:

Article

A model explaining mRNA level fluctuations based on activity demands and RNA age.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009188

By:

Xu, Zhongneng;
Asakawa, Shuichi

Publication type:

Article

Autoencoder based local T cell repertoire density can be used to classify samples and T cell receptors.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009225

By:

Dvorkin, Shirit;
Levi, Reut;
Louzoun, Yoram

Publication type:

Article

A mechanistic and data-driven reconstruction of the time-varying reproduction number: Application to the COVID-19 epidemic.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009211

By:

Cazelles, Bernard;
Champagne, Clara;
Nguyen-Van-Yen, Benjamin;
Comiskey, Catherine;
Vergu, Elisabeta;
Roche, Benjamin

Publication type:

Article

Bridging cell-scale simulations and radiologic images to explain short-time intratumoral oxygen fluctuations.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009206

By:

Kingsley, Jessica L.;
Costello, James R.;
Raghunand, Natarajan;
Rejniak, Katarzyna A.

Publication type:

Article

Explaining distortions in metacognition with an attractor network model of decision uncertainty.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009201

By:

Atiya, Nadim A. A.;
Huys, Quentin J. M.;
Dolan, Raymond J.;
Fleming, Stephen M.

Publication type:

Article

Covasim: An agent-based model of COVID-19 dynamics and interventions.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009149

By:

Kerr, Cliff C.;
Stuart, Robyn M.;
Mistry, Dina;
Abeysuriya, Romesh G.;
Rosenfeld, Katherine;
Hart, Gregory R.;
Núñez, Rafael C.;
Cohen, Jamie A.;
Selvaraj, Prashanth;
Hagedorn, Brittany;
George, Lauren;
Jastrzębski, Michał;
Izzo, Amanda S.;
Fowler, Greer;
Palmer, Anna;
Delport, Dominic;
Scott, Nick;
Kelly, Sherrie L.;
Bennette, Caroline S.;
Wagner, Bradley G.

Publication type:

Article

Insights into substrate recognition and specificity for IgG by Endoglycosidase S2.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009103

By:

Aytenfisu, Asaminew H.;
Deredge, Daniel;
Klontz, Erik H.;
Du, Jonathan;
Sundberg, Eric J.;
MacKerell, Alexander D.

Publication type:

Article

Dimeric allostery mechanism of the plant circadian clock photoreceptor ZEITLUPE.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009168

By:

Trozzi, Francesco;
Wang, Feng;
Verkhivker, Gennady;
Zoltowski, Brian D.;
Tao, Peng

Publication type:

Article

ChIP-GSM: Inferring active transcription factor modules to predict functional regulatory elements.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009203

By:

Chen, Xi;
Neuwald, Andrew F.;
Hilakivi-Clarke, Leena;
Clarke, Robert;
Xuan, Jianhua

Publication type:

Article

Projecting contact matrices in 177 geographical regions: An update and comparison with empirical data for the COVID-19 era.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009098

By:

Prem, Kiesha;
Zandvoort, Kevin van;
Klepac, Petra;
Eggo, Rosalind M.;
Davies, Nicholas G.;
Cook, Alex R.;
Jit, Mark

Publication type:

Article

The influence of the crowding assumptions in biofilm simulations.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009158

By:

Angeles-Martinez, Liliana;
Hatzimanikatis, Vassily

Publication type:

Article

Spatio-temporal modeling of the crowding conditions and metabolic variability in microbial communities.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009140

By:

Angeles-Martinez, Liliana;
Hatzimanikatis, Vassily

Publication type:

Article

Optimizing testing for COVID-19 in India.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009126

By:

Cherian, Philip;
Krishna, Sandeep;
Menon, Gautam I.

Publication type:

Article

PEDF, a pleiotropic WTC-LI biomarker: Machine learning biomarker identification and validation.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009144

By:

Crowley, George;
Kim, James;
Kwon, Sophia;
Lam, Rachel;
Prezant, David J.;
Liu, Mengling;
Nolan, Anna

Publication type:

Article

Performance and scaling behavior of bioinformatic applications in virtualization environments to create awareness for the efficient use of compute resources.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009244

By:

Hanussek, Maximilian;
Bartusch, Felix;
Krüger, Jens

Publication type:

Article

Single-cell analysis reveals the pan-cancer invasiveness-associated transition of adipose-derived stromal cells into COL11A1-expressing cancer-associated fibroblasts.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009228

By:

Zhu, Kaiyi;
Cai, Lingyi;
Cui, Chenqian;
de los Toyos, Juan R.;
Anastassiou, Dimitris

Publication type:

Article

Rigid-body fitting to atomic force microscopy images for inferring probe shape and biomolecular structure.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009215

By:

Niina, Toru;
Matsunaga, Yasuhiro;
Takada, Shoji

Publication type:

Article

Spatially resolved simulations of the spread of COVID-19 in three European countries.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009090

By:

Parisi, Andrea;
Brand, Samuel P. C.;
Hilton, Joe;
Aziza, Rabia;
Keeling, Matt J.;
Nokes, D. James

Publication type:

Article

Multi-scale simulations of the T cell receptor reveal its lipid interactions, dynamics and the arrangement of its cytoplasmic region.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009232

By:

Prakaash, Dheeraj;
Cook, Graham P.;
Acuto, Oreste;
Kalli, Antreas C.

Publication type:

Article

Hamming-shifting graph of genomic short reads: Efficient construction and its application for compression.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009229

By:

Liu, Yuansheng;
Li, Jinyan

Publication type:

Article

The effect of natural selection on the propagation of protein expression noise to bacterial growth.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009208

By:

Krah, Laurens H. J.;
Hermsen, Rutger

Publication type:

Article

Neuron tracing and quantitative analyses of dendritic architecture reveal symmetrical three-way-junctions and phenotypes of git-1 in C. elegans.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009185

By:

Yuval, Omer;
Iosilevskii, Yael;
Meledin, Anna;
Podbilewicz, Benjamin;
Shemesh, Tom

Publication type:

Article

From reaction kinetics to dementia: A simple dimer model of Alzheimer's disease etiology.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009114

By:

Lindstrom, Michael R.;
Chavez, Manuel B.;
Gross-Sable, Elijah A.;
Hayden, Eric Y.;
Teplow, David B.

Publication type:

Article

Immune selection suppresses the emergence of drug resistance in malaria parasites but facilitates its spread.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1008577

By:

Whitlock, Alexander O. B.;
Juliano, Jonathan J.;
Mideo, Nicole

Publication type:

Article

An association between prediction errors and risk-seeking: Theory and behavioral evidence.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009213

By:

Moeller, Moritz;
Grohn, Jan;
Manohar, Sanjay;
Bogacz, Rafal

Publication type:

Article

Prioritizing and characterizing functionally relevant genes across human tissues.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009194

By:

Somepalli, Gowthami;
Sahoo, Sarthak;
Singh, Arashdeep;
Hannenhalli, Sridhar

Publication type:

Article

An electrodiffusive neuron-extracellular-glia model for exploring the genesis of slow potentials in the brain.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1008143

By:

Sætra, Marte J.;
Einevoll, Gaute T.;
Halnes, Geir

Publication type:

Article

Risk sensitivity and theory of mind in human coordination.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009167

By:

Ferreira, Pedro L.;
Santos, Francisco C.;
Pequito, Sérgio

Publication type:

Article

Data integration uncovers the metabolic bases of phenotypic variation in yeast.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009157

By:

Petrizzelli, Marianyela Sabina;
de Vienne, Dominique;
Nidelet, Thibault;
Noûs, Camille;
Dillmann, Christine

Publication type:

Article