Works matching IS 1553734X AND DT 2021 AND VI 17 AND IP 5

Results: 77

A reaction-diffusion network model predicts a dual role of Cactus/IκB to regulate Dorsal/NFκB nuclear translocation in Drosophila.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009040

By:

Barros, Claudio D. T.;
Cardoso, Maira A.;
Bisch, Paulo M.;
Araujo, Helena M.;
Lopes, Francisco J. P.

Publication type:

Article

Finding recurrent RNA structural networks with fast maximal common subgraphs of edge-colored graphs.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008990

By:

Soulé, Antoine;
Reinharz, Vladimir;
Sarrazin-Gendron, Roman;
Denise, Alain;
Waldispühl, Jérôme

Publication type:

Article

Targeted modification of the Per2 clock gene alters circadian function in mPer2<sup>luciferase</sup> (mPer2<sup>Luc</sup>) mice.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008987

By:

Ralph, Martin R.;
Shi, Shu-qun;
Johnson, Carl H.;
Houdek, Pavel;
Shrestha, Tenjin C.;
Crosby, Priya;
O'Neill, John S.;
Sládek, Martin;
Stinchcombe, Adam R.;
Sumová, Alena

Publication type:

Article

PRER: A patient representation with pairwise relative expression of proteins on biological networks.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008998

By:

Kuru, Halil İbrahim;
Buyukozkan, Mustafa;
Tastan, Oznur

Publication type:

Article

Correction: PPM-Decay: A computational model of auditory prediction with memory decay.

Published in:

2021

By:

Harrison, Peter M. C.;
Bianco, Roberta;
Chait, Maria;
Pearce, Marcus T.

Publication type:

Correction Notice

A deep learning algorithm for 3D cell detection in whole mouse brain image datasets.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009074

By:

Tyson, Adam L.;
Rousseau, Charly V.;
Niedworok, Christian J.;
Keshavarzi, Sepiedeh;
Tsitoura, Chryssanthi;
Cossell, Lee;
Strom, Molly;
Margrie, Troy W.

Publication type:

Article

Ten simple rules for productive lab meetings.

Published in:

2021

By:

Golden, Nigel;
Devarajan, Kadambari;
Balantic, Cathleen;
Drake, Joseph;
Hallworth, Michael T.;
Morelli, Toni Lyn

Publication type:

Editorial

Activity-mediated accumulation of potassium induces a switch in firing pattern and neuronal excitability type.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008510

By:

Contreras, Susana Andrea;
Schleimer, Jan-Hendrik;
Gulledge, Allan T.;
Schreiber, Susanne

Publication type:

Article

Correction: Critical role of deadenylation in regulating poly(A) rhythms and circadian gene expression.

Published in:

2021

By:

Yao, Xiangyu;
Kojima, Shihoko;
Chen, Jing

Publication type:

Correction Notice

Antibody Watch: Text mining antibody specificity from the literature.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008967

By:

Hsu, Chun-Nan;
Chang, Chia-Hui;
Poopradubsil, Thamolwan;
Lo, Amanda;
William, Karen A.;
Lin, Ko-Wei;
Bandrowski, Anita;
Ozyurt, Ibrahim Burak;
Grethe, Jeffrey S.;
Martone, Maryann E.

Publication type:

Article

Estimating direct and spill-over impacts of political elections on COVID-19 transmission using synthetic control methods.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008959

By:

Lim, Jue Tao;
Maung, Kenwin;
Tan, Sok Teng;
Ong, Suan Ee;
Lim, Jane Mingjie;
Koo, Joel Ruihan;
Sun, Haoyang;
Park, Minah;
Tan, Ken Wei;
Yoong, Joanne;
Cook, Alex R.;
Dickens, Borame Sue Lee

Publication type:

Article

Global disruption in excitation-inhibition balance can cause localized network dysfunction and Schizophrenia-like context-integration deficits.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008985

By:

Calvin, Olivia L.;
Redish, A. David

Publication type:

Article

Evaluation of residue-residue contact prediction methods: From retrospective to prospective.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009027

By:

Zhang, Huiling;
Bei, Zhendong;
Xi, Wenhui;
Hao, Min;
Ju, Zhen;
Saravanan, Konda Mani;
Zhang, Haiping;
Guo, Ning;
Wei, Yanjie

Publication type:

Article

Genome-scale metabolic modelling when changes in environmental conditions affect biomass composition.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008528

By:

Schulz, Christian;
Kumelj, Tjasa;
Karlsen, Emil;
Almaas, Eivind

Publication type:

Article

Modelling 3D saccade generation by feedforward optimal control.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008975

By:

John, Akhil;
Aleluia, Carlos;
Van Opstal, A. John;
Bernardino, Alexandre

Publication type:

Article

Leveraging eQTLs to identify individual-level tissue of interest for a complex trait.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008915

By:

Majumdar, Arunabha;
Giambartolomei, Claudia;
Cai, Na;
Haldar, Tanushree;
Schwarz, Tommer;
Gandal, Michael;
Flint, Jonathan;
Pasaniuc, Bogdan

Publication type:

Article

On the effect of phylogenetic correlations in coevolution-based contact prediction in proteins.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008957

By:

Rodriguez Horta, Edwin;
Weigt, Martin

Publication type:

Article

Calculation of the force field required for nucleus deformation during cell migration through constrictions.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008592

By:

Estabrook, Ian D.;
Thiam, Hawa Racine;
Piel, Matthieu;
Hawkins, Rhoda J.

Publication type:

Article

The gradient clusteron: A model neuron that learns to solve classification tasks via dendritic nonlinearities, structural plasticity, and gradient descent.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009015

By:

Moldwin, Toviah;
Kalmenson, Menachem;
Segev, Idan

Publication type:

Article

MGDrivE 2: A simulation framework for gene drive systems incorporating seasonality and epidemiological dynamics.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009030

By:

Wu, Sean L.;
Bennett, Jared B.;
Sánchez C., Héctor M.;
Dolgert, Andrew J.;
León, Tomás M.;
Marshall, John M.

Publication type:

Article

Sequence learning recodes cortical representations instead of strengthening initial ones.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008969

By:

Kalm, Kristjan;
Norris, Dennis

Publication type:

Article

VCF2CAPS–A high-throughput CAPS marker design from VCF files and its test-use on a genotyping-by-sequencing (GBS) dataset.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008980

By:

Wesołowski, Wojciech;
Domnicz, Beata;
Augustynowicz, Joanna;
Szklarczyk, Marek

Publication type:

Article

Maximally efficient prediction in the early fly visual system may support evasive flight maneuvers.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008965

By:

Wang, Siwei;
Segev, Idan;
Borst, Alexander;
Palmer, Stephanie

Publication type:

Article

Ten simple rules to make your publication look better.

Published in:

2021

By:

Ehrhart, Friederike;
Evelo, Chris T.

Publication type:

Editorial

What do Eulerian and Hamiltonian cycles have to do with genome assembly?

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008928

By:

Medvedev, Paul;
Pop, Mihai

Publication type:

Article

Conformational plasticity and dynamic interactions of the N-terminal domain of the chemokine receptor CXCR1.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008593

By:

Kharche, Shalmali;
Joshi, Manali;
Chattopadhyay, Amitabha;
Sengupta, Durba

Publication type:

Article

Signaling through polymerization and degradation: Analysis and simulations of T cell activation mediated by Bcl10.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1007986

By:

Campanello, Leonard;
Traver, Maria K.;
Shroff, Hari;
Schaefer, Brian C.;
Losert, Wolfgang

Publication type:

Article

Mechanistic model of nutrient uptake explains dichotomy between marine oligotrophic and copiotrophic bacteria.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009023

By:

Norris, Noele;
Levine, Naomi M.;
Fernandez, Vicente I.;
Stocker, Roman

Publication type:

Article

Sensory modulation of gait characteristics in human locomotion: A neuromusculoskeletal modeling study.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008594

By:

Di Russo, Andrea;
Stanev, Dimitar;
Armand, Stéphane;
Ijspeert, Auke

Publication type:

Article

G2S3: A gene graph-based imputation method for single-cell RNA sequencing data.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009029

By:

Wu, Weimiao;
Liu, Yunqing;
Dai, Qile;
Yan, Xiting;
Wang, Zuoheng

Publication type:

Article

Real-time single-cell characterization of the eukaryotic transcription cycle reveals correlations between RNA initiation, elongation, and cleavage.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008999

By:

Liu, Jonathan;
Hansen, Donald;
Eck, Elizabeth;
Kim, Yang Joon;
Turner, Meghan;
Alamos, Simon;
Garcia, Hernan

Publication type:

Article

Effects of subclinical depression on prefrontal–striatal model-based and model-free learning.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009003

By:

Heo, Suyeon;
Sung, Yoondo;
Lee, Sang Wan

Publication type:

Article

scHiCTools: A computational toolbox for analyzing single-cell Hi-C data.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008978

By:

Li, Xinjun;
Feng, Fan;
Pu, Hongxi;
Leung, Wai Yan;
Liu, Jie

Publication type:

Article

Mathematical modeling of multiple pathways in colorectal carcinogenesis using dynamical systems with Kronecker structure.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008970

By:

Haupt, Saskia;
Zeilmann, Alexander;
Ahadova, Aysel;
Bläker, Hendrik;
von Knebel Doeberitz, Magnus;
Kloor, Matthias;
Heuveline, Vincent

Publication type:

Article

MiMeNet: Exploring microbiome-metabolome relationships using neural networks.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009021

By:

Reiman, Derek;
Layden, Brian T.;
Dai, Yang

Publication type:

Article

Cortical propagation tracks functional recovery after stroke.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008963

By:

Cecchini, Gloria;
Scaglione, Alessandro;
Allegra Mascaro, Anna Letizia;
Checcucci, Curzio;
Conti, Emilia;
Adam, Ihusan;
Fanelli, Duccio;
Livi, Roberto;
Pavone, Francesco Saverio;
Kreuz, Thomas

Publication type:

Article

Robust switches in thalamic network activity require a timescale separation between sodium and T-type calcium channel activations.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008997

By:

Jacquerie, Kathleen;
Drion, Guillaume

Publication type:

Article

Hierarchical semantic composition of biosimulation models using bond graphs.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008859

By:

Shahidi, Niloofar;
Pan, Michael;
Safaei, Soroush;
Tran, Kenneth;
Crampin, Edmund J.;
Nickerson, David P.

Publication type:

Article

Molecular dynamics shows complex interplay and long-range effects of post-translational modifications in yeast protein interactions.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008988

By:

ŠoŠtarić, Nikolina;
van Noort, Vera

Publication type:

Article

Swarm: A federated cloud framework for large-scale variant analysis.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008977

By:

Bahmani, Amir;
Ferriter, Kyle;
Krishnan, Vandhana;
Alavi, Arash;
Alavi, Amir;
Tsao, Philip S.;
Snyder, Michael P.;
Pan, Cuiping

Publication type:

Article

Balanced networks under spike-time dependent plasticity.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008958

By:

Akil, Alan Eric;
Rosenbaum, Robert;
Josić, Krešimir

Publication type:

Article

What we can and what we cannot see with extracellular multielectrodes.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008615

By:

Chintaluri, Chaitanya;
Bejtka, Marta;
Średniawa, Władysław;
Czerwiński, Michał;
Dzik, Jakub M.;
Jędrzejewska-Szmek, Joanna;
Kondrakiewicz, Kacper;
Kublik, Ewa;
Wójcik, Daniel K.

Publication type:

Article

Patterns of selection against centrosome amplification in human cell lines.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008765

By:

Dias Louro, Marco António;
Bettencourt-Dias, Mónica;
Bank, Claudia

Publication type:

Article

Secondary indoor air pollution and passive smoking associated with cannabis smoking using electric cigarette device–demonstrative in silico study.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1009004

By:

Kuga, Kazuki;
Ito, Kazuhide;
Chen, Wenhao;
Wang, Ping;
Fowles, Jeff;
Kumagai, Kazukiyo

Publication type:

Article

Can molecular dynamics simulations improve the structural accuracy and virtual screening performance of GPCR models?

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008936

By:

Kapla, Jon;
Rodriguez Espigares, Ismael;
Ballante, Flavio;
Selent, Jana;
Carlsson, Jens

Publication type:

Article

Red blood cell phenotyping from 3D confocal images using artificial neural networks.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008934

By:

Simionato, Greta;
Hinkelmann, Konrad;
Chachanidze, Revaz;
Bianchi, Paola;
Fermo, Elisa;
van Wijk, Richard;
Leonetti, Marc;
Wagner, Christian;
Kaestner, Lars;
Quint, Stephan

Publication type:

Article

Global importance analysis: An interpretability method to quantify importance of genomic features in deep neural networks.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008925

By:

Koo, Peter K.;
Majdandzic, Antonio;
Ploenzke, Matthew;
Anand, Praveen;
Paul, Steffan B.

Publication type:

Article

Incorporating the speciation process into species delimitation.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008924

By:

Sukumaran, Jeet;
Holder, Mark T.;
Knowles, L. Lacey

Publication type:

Article

Fostering accessible online education using Galaxy as an e-learning platform.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008923

By:

Serrano-Solano, Beatriz;
Föll, Melanie C.;
Gallardo-Alba, Cristóbal;
Erxleben, Anika;
Rasche, Helena;
Hiltemann, Saskia;
Fahrner, Matthias;
Dunning, Mark J.;
Schulz, Marcel H.;
Scholtz, Beáta;
Clements, Dave;
Nekrutenko, Anton;
Batut, Bérénice;
Grüning, Björn A.

Publication type:

Article

A constructivist-based proposal for bioinformatics teaching practices during lockdown.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008922

By:

Gallardo-Alba, Cristóbal;
Grüning, Björn;
Serrano-Solano, Beatriz

Publication type:

Article