Works matching IS 1553734X AND DT 2023 AND VI 19 AND IP 11

Results: 64

Tuning social interactions' strength drives collective response to light intensity in schooling fish.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011636

By:

Xue, Tingting;
Li, Xu;
Lin, GuoZheng;
Escobedo, Ramón;
Han, Zhangang;
Chen, Xiaosong;
Sire, Clément;
Theraulaz, Guy

Publication type:

Article

The SKMT Algorithm: A method for assessing and comparing underlying protein entanglement.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011248

By:

Bale, Arron;
Rambo, Robert;
Prior, Christopher

Publication type:

Article

On convolutional neural networks for selection inference: Revealing the effect of preprocessing on model learning and the capacity to discover novel patterns.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1010979

By:

Cecil, Ryan M.;
Sugden, Lauren A.

Publication type:

Article

Identifying promoter sequence architectures via a chunking-based algorithm using non-negative matrix factorisation.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011491

By:

Nikumbh, Sarvesh;
Lenhard, Boris

Publication type:

Article

Overcoming chemotherapy resistance in low-grade gliomas: A computational approach.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011208

By:

Delobel, Thibault;
Ayala-Hernández, Luis E.;
Bosque, Jesús J.;
Pérez-Beteta, Julián;
Chulián, Salvador;
García-Ferrer, Manuel;
Piñero, Pilar;
Schucht, Philippe;
Murek, Michael;
Pérez-García, Víctor M.

Publication type:

Article

Modeling the diverse effects of divisive normalization on noise correlations.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011667

By:

Weiss, Oren;
Bounds, Hayley A.;
Adesnik, Hillel;
Coen-Cagli, Ruben

Publication type:

Article

Fluctuations in auxin levels depend upon synchronicity of cell divisions in a one-dimensional model of auxin transport.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011646

By:

Bellows, Simon;
Janes, George;
Avitabile, Daniele;
King, John R.;
Bishopp, Anthony;
Farcot, Etienne

Publication type:

Article

Metamodelling of a two-population spiking neural network.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011625

By:

Skaar, Jan-Eirik W.;
Haug, Nicolai;
Stasik, Alexander J.;
Einevoll, Gaute T.;
Tøndel, Kristin

Publication type:

Article

Contributions of cell behavior to geometric order in embryonic cartilage.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011658

By:

Mathias, Sonja;
Adameyko, Igor;
Hellander, Andreas;
Kursawe, Jochen

Publication type:

Article

The MAGMA pipeline for comprehensive genomic analyses of clinical Mycobacterium tuberculosis samples.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011648

By:

Heupink, Tim H.;
Verboven, Lennert;
Sharma, Abhinav;
Rennie, Vincent;
de Diego Fuertes, Miguel;
Warren, Robin M.;
Van Rie, Annelies

Publication type:

Article

Predicting lncRNA-disease associations based on heterogeneous graph convolutional generative adversarial network.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011634

By:

Lu, Zhonghao;
Zhong, Hua;
Tang, Lin;
Luo, Jing;
Zhou, Wei;
Liu, Lin

Publication type:

Article

Facilitating bioinformatics reproducibility with QIIME 2 provenance Replay.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011676

By:

Keefe, Christopher R.;
Dillon, Matthew R.;
Gehret, Elizabeth;
Herman, Chloe;
Jewell, Mary;
Wood, Colin V.;
Bolyen, Evan;
Caporaso, J. Gregory

Publication type:

Article

Adaptive oscillators support Bayesian prediction in temporal processing.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011669

By:

Doelling, Keith B.;
Arnal, Luc H.;
Assaneo, M. Florencia

Publication type:

Article

A simulation-based method to inform serosurvey designs for estimating the force of infection using existing blood samples.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011666

By:

Vicco, Anna;
McCormack, Clare P.;
Pedrique, Belen;
Amuasi, John H.;
Awuah, Anthony Afum-Adjei;
Obirikorang, Christian;
Struck, Nicole S.;
Lorenz, Eva;
May, Jürgen;
Ribeiro, Isabela;
Malavige, Gathsaurie Neelika;
Donnelly, Christl A.;
Dorigatti, Ilaria

Publication type:

Article

How effective were Australian Quarantine Stations in mitigating transmission aboard ships during the influenza pandemic of 1918-19?

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011656

By:

Alahakoon, Punya;
Taylor, Peter G.;
McCaw, James M.

Publication type:

Article

GENERALIST: A latent space based generative model for protein sequence families.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011655

By:

Akl, Hoda;
Emison, Brooke;
Zhao, Xiaochuan;
Mondal, Arup;
Perez, Alberto;
Dixit, Purushottam D.

Publication type:

Article

Why are different estimates of the effective reproductive number so different? A case study on COVID-19 in Germany.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011653

By:

Brockhaus, Elisabeth K.;
Wolffram, Daniel;
Stadler, Tanja;
Osthege, Michael;
Mitra, Tanmay;
Littek, Jonas M.;
Krymova, Ekaterina;
Klesen, Anna J.;
Huisman, Jana S.;
Heyder, Stefan;
Helleckes, Laura M.;
an der Heiden, Matthias;
Funk, Sebastian;
Abbott, Sam;
Bracher, Johannes

Publication type:

Article

Assessing the importance of demographic risk factors across two waves of SARS-CoV-2 using fine-scale case data.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011611

By:

Wood, Anthony J.;
Sanchez, Aeron R.;
Bessell, Paul R.;
Wightman, Rebecca;
Kao, Rowland R.

Publication type:

Article

Biased placement of Mitochondria fission facilitates asymmetric inheritance of protein aggregates during yeast cell division.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011588

By:

Sun, Gordon;
Hwang, Christine;
Jung, Tony;
Liu, Jian;
Li, Rong

Publication type:

Article

A Bayesian inference method to estimate transmission trees with multiple introductions; applied to SARS-CoV-2 in Dutch mink farms.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1010928

By:

Van der Roest, Bastiaan R.;
Bootsma, Martin C. J.;
Fischer, Egil A. J.;
Klinkenberg, Don;
Kretzschmar, Mirjam E. E.

Publication type:

Article

Computational design of novel Cas9 PAM-interacting domains using evolution-based modelling and structural quality assessment.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011621

By:

Malbranke, Cyril;
Rostain, William;
Depardieu, Florence;
Cocco, Simona;
Monasson, Rémi;
Bikard, David

Publication type:

Article

A multiscale model of the role of microenvironmental factors in cell segregation and heterogeneity in breast cancer development.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011673

By:

Romero-Arias, J. Roberto;
González-Castro, Carlos A.;
Ramírez-Santiago, Guillermo

Publication type:

Article

Correction: AI-Assisted chemical probe discovery for the understudied Calcium-Calmodulin Dependent Kinase, PNCK.

Published in:

2023

By:

Essegian, Derek J.;
Chavez, Valery;
Khurshid, Rabia;
Merchan, Jaime R.;
Schürer, Stephan C.

Publication type:

Correction Notice

IDP-LM: Prediction of protein intrinsic disorder and disorder functions based on language models.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011657

By:

Pang, Yihe;
Liu, Bin

Publication type:

Article

Only a topological method can identify all possible network structures capable of Robust Perfect Adaptation.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011638

By:

Araujo, Robyn P.;
Liotta, Lance A.

Publication type:

Article

Network analysis of patterns and relevance of enteric pathogen co-infections among infants in a diarrhea-endemic setting.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011624

By:

Colgate, E. Ross;
Klopfer, Connor;
Dickson, Dorothy M.;
Lee, Benjamin;
Wargo, Matthew J.;
Alam, Ashraful;
Kirkpatrick, Beth D.;
Hébert-Dufresne, Laurent

Publication type:

Article

Bayesian accounts of perceptual decisions in the nonclinical continuum of psychosis: Greater imprecision in both top-down and bottom-up processes.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011670

By:

Goodwin, Isabella;
Kugel, Joshua;
Hester, Robert;
Garrido, Marta I.

Publication type:

Article

Neural network models for sequence-based TCR and HLA association prediction.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011664

By:

Liu, Si;
Bradley, Philip;
Sun, Wei

Publication type:

Article

Addressing erroneous scale assumptions in microbe and gene set enrichment analysis.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011659

By:

McGovern, Kyle C.;
Nixon, Michelle Pistner;
Silverman, Justin D.

Publication type:

Article

Imaging with spatio-temporal modelling to characterize the dynamics of plant-pathogen lesions.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011627

By:

Leclerc, Melen;
Jumel, Stéphane;
Hamelin, Frédéric M.;
Treilhaud, Rémi;
Parisey, Nicolas;
Mammeri, Youcef

Publication type:

Article

Exploring strategy differences between humans and monkeys with recurrent neural networks.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011618

By:

Tsuda, Ben;
Richmond, Barry J.;
Sejnowski, Terrence J.

Publication type:

Article

Gene communities in co-expression networks across different tissues.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011616

By:

Russell, Madison;
Aqil, Alber;
Saitou, Marie;
Gokcumen, Omer;
Masuda, Naoki

Publication type:

Article

Information-theoretic analyses of neural data to minimize the effect of researchers' assumptions in predictive coding studies.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011567

By:

Wollstadt, Patricia;
Rathbun, Daniel L.;
Usrey, W. Martin;
Bastos, André Moraes;
Lindner, Michael;
Priesemann, Viola;
Wibral, Michael

Publication type:

Article

The mechanism of MinD stability modulation by MinE in Min protein dynamics.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011615

By:

Carlquist, William C.;
Cytrynbaum, Eric N.

Publication type:

Article

Omnidirectional propulsion in a metachronal swimmer.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1010891

By:

Herrera-Amaya, Adrian;
Byron, Margaret L.

Publication type:

Article

AimSeg: A machine-learning-aided tool for axon, inner tongue and myelin segmentation.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1010845

By:

Carrillo-Barberà, Pau;
Rondelli, Ana Maria;
Morante-Redolat, Jose Manuel;
Vernay, Bertrand;
Williams, Anna;
Bankhead, Peter

Publication type:

Article

FUN-PROSE: A deep learning approach to predict condition-specific gene expression in fungi.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011563

By:

Nambiar, Ananthan;
Dubinkina, Veronika;
Liu, Simon;
Maslov, Sergei

Publication type:

Article

Inferring microbial interactions with their environment from genomic and metagenomic data.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011661

By:

Brunner, James D.;
Gallegos-Graves, Laverne A.;
Kroeger, Marie E.

Publication type:

Article

External mechanical loading overrules cell-cell mechanical communication in sprouting angiogenesis during early bone regeneration.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011647

By:

Dazzi, Chiara;
Mehl, Julia;
Benamar, Mounir;
Gerhardt, Holger;
Knaus, Petra;
Duda, Georg N.;
Checa, Sara

Publication type:

Article

Understanding heterogeneous mechanisms of heart failure with preserved ejection fraction through cardiorenal mathematical modeling.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011598

By:

Basu, Sanchita;
Yu, Hongtao;
Murrow, Jonathan R.;
Hallow, K. Melissa

Publication type:

Article

A general hypergraph learning algorithm for drug multi-task predictions in micro-to-macro biomedical networks.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011597

By:

Jin, Shuting;
Hong, Yue;
Zeng, Li;
Jiang, Yinghui;
Lin, Yuan;
Wei, Leyi;
Yu, Zhuohang;
Zeng, Xiangxiang;
Liu, Xiangrong

Publication type:

Article

Bayesian spatial modelling of localised SARS-CoV-2 transmission through mobility networks across England.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011580

By:

Ward, Thomas;
Morris, Mitzi;
Gelman, Andrew;
Carpenter, Bob;
Ferguson, William;
Overton, Christopher;
Fyles, Martyn

Publication type:

Article

Label-free deep learning-based species classification of bacteria imaged by phase-contrast microscopy.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011181

By:

Hallström, Erik;
Kandavalli, Vinodh;
Ranefall, Petter;
Elf, Johan;
Wählby, Carolina

Publication type:

Article

Folding kinetics of an entangled protein.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011107

By:

Salicari, Leonardo;
Baiesi, Marco;
Orlandini, Enzo;
Trovato, Antonio

Publication type:

Article

Repetitive transcranial magnetic stimulation (rTMS) triggers dose-dependent homeostatic rewiring in recurrent neuronal networks.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011027

By:

Anil, Swathi;
Lu, Han;
Rotter, Stefan;
Vlachos, Andreas

Publication type:

Article

Attention-based deep clustering method for scRNA-seq cell type identification.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011641

By:

Li, Shenghao;
Guo, Hui;
Zhang, Simai;
Li, Yizhou;
Li, Menglong

Publication type:

Article

The limitations of phenotype prediction in metabolism.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011631

By:

Yubero, Pablo;
Lavin, Alvar A.;
Poyatos, Juan F.

Publication type:

Article

BayFlux: A Bayesian method to quantify metabolic Fluxes and their uncertainty at the genome scale.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011111

By:

Backman, Tyler W. H.;
Schenk, Christina;
Radivojevic, Tijana;
Ando, David;
Singh, Jahnavi;
Czajka, Jeffrey J.;
Costello, Zak;
Keasling, Jay D.;
Tang, Yinjie;
Akhmatskaya, Elena;
Garcia Martin, Hector

Publication type:

Article

Architecture of the brain's visual system enhances network stability and performance through layers, delays, and feedback.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011078

By:

Velarde, Osvaldo Matias;
Makse, Hernán A.;
Parra, Lucas C.

Publication type:

Article

Learning efficient representations of environmental priors in working memory.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 11, p. 1, doi. 10.1371/journal.pcbi.1011622

By:

Eissa, Tahra L.;
Kilpatrick, Zachary P.

Publication type:

Article