Works matching IS 1553734X AND DT 2024 AND VI 20 AND IP 11

Results: 51

Eleven quick tips for properly handling tabular data.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012604

By:

Hertz, Marla I.;
McNeill, Ashley S.

Publication type:

Article

scGRN-Entropy: Inferring cell differentiation trajectories using single-cell data and gene regulation network-based transfer entropy.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012638

By:

Sun, Rui;
Cao, Wenjie;
Li, ShengXuan;
Jiang, Jian;
Shi, Yazhou;
Zhang, Bengong

Publication type:

Article

Socially driven negative feedback regulates activity and energy use in ant colonies.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012623

By:

Porfiri, Maurizio;
Abaid, Nicole;
Garnier, Simon

Publication type:

Article

An inductive bias for slowly changing features in human reinforcement learning.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012568

By:

Hedrich, Noa L.;
Schulz, Eric;
Hall-McMaster, Sam;
Schuck, Nicolas W.

Publication type:

Article

Mathematical modeling suggests heterogeneous replication of Mycobacterium tuberculosis in rabbits.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012563

By:

Ganusov, Vitaly V.;
Kolloli, Afsal;
Subbian, Selvakumar

Publication type:

Article

The evolutionary cost of homophily: Social stratification facilitates stable variant coexistence and increased rates of evolution in host-associated pathogens.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012619

By:

Li, Shuanger;
Gulisija, Davorka;
Carja, Oana

Publication type:

Article

Storm: Incorporating transient stochastic dynamics to infer the RNA velocity with metabolic labeling information.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012606

By:

Peng, Qiangwei;
Qiu, Xiaojie;
Li, Tiejun

Publication type:

Article

Competition for resources can reshape the evolutionary properties of spatial structure.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012542

By:

Devadhasan, Anush;
Kolodny, Oren;
Carja, Oana

Publication type:

Article

An off-lattice discrete model to characterise filamentous yeast colony morphology.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012605

By:

Li, Kai;
Green, J. Edward F.;
Tronnolone, Hayden;
Tam, Alexander K. Y.;
Black, Andrew J.;
Gardner, Jennifer M.;
Sundstrom, Joanna F.;
Jiranek, Vladimir;
Binder, Benjamin J.

Publication type:

Article

Learning patterns of HIV-1 resistance to broadly neutralizing antibodies with reduced subtype bias using multi-task learning.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012618

By:

Igiraneza, Aime Bienfait;
Zacharopoulou, Panagiota;
Hinch, Robert;
Wymant, Chris;
Abeler-Dörner, Lucie;
Frater, John;
Fraser, Christophe

Publication type:

Article

Rapid prediction of key residues for foldability by machine learning model enables the design of highly functional libraries with hyperstable constrained peptide scaffolds.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012609

By:

Cai, Fei;
Wei, Yuehua;
Kirchhofer, Daniel;
Chang, Andrew;
Zhang, Yingnan

Publication type:

Article

Co-contraction embodies uncertainty: An optimal feedforward strategy for robust motor control.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012598

By:

Berret, Bastien;
Verdel, Dorian;
Burdet, Etienne;
Jean, Frédéric

Publication type:

Article

Deep neural networks for endemic measles dynamics: Comparative analysis and integration with mechanistic models.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012616

By:

Madden, Wyatt G.;
Jin, Wei;
Lopman, Benjamin;
Zufle, Andreas;
Dalziel, Benjamin;
E. Metcalf, C. Jessica;
Grenfell, Bryan T.;
Lau, Max S. Y.

Publication type:

Article

Upstream open reading frames may contain hundreds of novel human exons.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012543

By:

Ji, Hyun Joo;
Salzberg, Steven L.

Publication type:

Article

Efficient modelling of infectious diseases in wildlife: A case study of bovine tuberculosis in wild badgers.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012592

By:

Konzen, Evandro;
Delahay, Richard J.;
Hodgson, Dave J.;
McDonald, Robbie A.;
Brooks Pollock, Ellen;
Spencer, Simon E. F.;
McKinley, Trevelyan J.

Publication type:

Article

Reward Bases: A simple mechanism for adaptive acquisition of multiple reward types.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012580

By:

Millidge, Beren;
Song, Yuhang;
Lak, Armin;
Walton, Mark E.;
Bogacz, Rafal

Publication type:

Article

A framework for counterfactual analysis, strategy evaluation, and control of epidemics using reproduction number estimates.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012569

By:

She, Baike;
Smith, Rebecca Lee;
Pytlarz, Ian;
Sundaram, Shreyas;
Paré, Philip E.

Publication type:

Article

MFPSP: Identification of fungal species-specific phosphorylation site using offspring competition-based genetic algorithm.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012607

By:

Wang, Chao;
Zou, Quan

Publication type:

Article

Prediction of virus-host associations using protein language models and multiple instance learning.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012597

By:

Liu, Dan;
Young, Francesca;
Lamb, Kieran D.;
Robertson, David L.;
Yuan, Ke

Publication type:

Article

Human perception of self-motion and orientation during galvanic vestibular stimulation and physical motion.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012601

By:

Allred, Aaron R.;
Austin, Caroline R.;
Klausing, Lanna;
Boggess, Nicholas;
Clark, Torin K.

Publication type:

Article

GeM-LR: Discovering predictive biomarkers for small datasets in vaccine studies.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012581

By:

Lin, Lin;
Spreng, Rachel L.;
Seaton, Kelly E.;
Dennison, S. Moses;
Dahora, Lindsay C.;
Schuster, Daniel J.;
Sawant, Sheetal;
Gilbert, Peter B.;
Fong, Youyi;
Kisalu, Neville;
Pollard, Andrew J.;
Tomaras, Georgia D.;
Li, Jia

Publication type:

Article

Human-like dissociations between confidence and accuracy in convolutional neural networks.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012578

By:

Shekhar, Medha;
Rahnev, Dobromir

Publication type:

Article

A computational algorithm for optimal design of a bioartificial organ scaffold architecture.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012079

By:

Bukač, Martina;
Čanić, Sunčica;
Muha, Boris;
Wang, Yifan

Publication type:

Article

Simplified internal models in human control of complex objects.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012599

By:

Bazzi, Salah;
Stansfield, Stephan;
Hogan, Neville;
Sternad, Dagmar

Publication type:

Article

A new look at TFPI inhibition of factor X activation.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012509

By:

Santiago, Fabian;
Kaur, Amandeep;
Bride, Shannon;
Monroe, Dougald;
Leiderman, Karin;
Sindi, Suzanne

Publication type:

Article

Kernel machine tests of association using extrinsic and intrinsic cluster evaluation metrics.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012524

By:

Jensen, Alexandria M.;
DeWitt, Peter;
Bettcher, Brianne M.;
Wrobel, Julia;
Kechris, Katerina;
Ghosh, Debashis

Publication type:

Article

A dynamical systems model for the total fission rate in Drp1-dependent mitochondrial fission.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012596

By:

Leinheiser, Anna K.;
Mitchell, Colleen C.;
Rooke, Ethan;
Strack, Stefan;
Grueter, Chad E.

Publication type:

Article

SPARTA: Interpretable functional classification of microbiomes and detection of hidden cumulative effects.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012577

By:

Ruiz, Baptiste;
Belcour, Arnaud;
Blanquart, Samuel;
Buffet-Bataillon, Sylvie;
Le Huërou-Luron, Isabelle;
Siegel, Anne;
Le Cunff, Yann

Publication type:

Article

Integrative pan-cancer analysis reveals a common architecture of dysregulated transcriptional networks characterized by loss of enhancer methylation.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012565

By:

Ankill, Jørgen;
Zhao, Zhi;
Tekpli, Xavier;
Kure, Elin H.;
Kristensen, Vessela N.;
Mathelier, Anthony;
Fleischer, Thomas

Publication type:

Article

AI-powered simulation-based inference of a genuinely spatial-stochastic gene regulation model of early mouse embryogenesis.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012473

By:

Ramirez Sierra, Michael Alexander;
Sokolowski, Thomas R.

Publication type:

Article

Evolutionary history of calcium-sensing receptors unveils hyper/hypocalcemia-causing mutations.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012591

By:

Bircan, Aylin;
Kuru, Nurdan;
Dereli, Onur;
Selçuk, Berkay;
Adebali, Ogün

Publication type:

Article

Approximate planning in spatial search.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012582

By:

Kryven, Marta;
Yu, Suhyoun;
Kleiman-Weiner, Max;
Ullman, Tomer;
Tenenbaum, Joshua

Publication type:

Article

EpiFusion: Joint inference of the effective reproduction number by integrating phylodynamic and epidemiological modelling with particle filtering.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012528

By:

Judge, Ciara;
Vaughan, Timothy;
Russell, Timothy;
Abbott, Sam;
du Plessis, Louis;
Stadler, Tanja;
Brady, Oliver;
Hill, Sarah

Publication type:

Article

Linear-regression-based algorithms can succeed at identifying microbial functional groups despite the nonlinearity of ecological function.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012590

By:

Zhao, Yuanchen;
Cordero, Otto X.;
Tikhonov, Mikhail

Publication type:

Article

Mechanical stress and anionic lipids synergistically stabilize an atypical structure of the angiotensin II type 1 receptor (AT1).

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012559

By:

Ben Boubaker, Rym;
Henrion, Daniel;
Chabbert, Marie

Publication type:

Article

An electrodiffusive network model with multicompartmental neurons and synaptic connections.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012114

By:

Sætra, Marte J.;
Mori, Yoichiro

Publication type:

Article

Molecular dynamics simulations of a multicellular model with cell-cell interactions and Hippo signaling pathway.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012536

By:

Umegaki, Toshihito;
Moriizumi, Hisashi;
Ogushi, Fumiko;
Takekawa, Mutsuhiro;
Suzuki, Takashi

Publication type:

Article

Assessing the effect of model specification and prior sensitivity on Bayesian tests of temporal signal.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012371

By:

Tay, John H.;
Kocher, Arthur;
Duchene, Sebastian

Publication type:

Article

Reliability of plastid and mitochondrial localisation prediction declines rapidly with the evolutionary distance to the training set increasing.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012575

By:

Gould, Sven B.;
Magiera, Jonas;
García García, Carolina;
Raval, Parth K.

Publication type:

Article

Capturing cell heterogeneity in representations of cell populations for image-based profiling using contrastive learning.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012547

By:

van Dijk, Robert;
Arevalo, John;
Babadi, Mehrtash;
Carpenter, Anne E.;
Singh, Shantanu

Publication type:

Article

Deep-learning models reveal how context and listener attention shape electrophysiological correlates of speech-to-language transformation.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012537

By:

Anderson, Andrew J.;
Davis, Chris;
Lalor, Edmund C.

Publication type:

Article

Teaching deep networks to see shape: Lessons from a simplified visual world.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012019

By:

Jarvers, Christian;
Neumann, Heiko

Publication type:

Article

A deep learning model for prediction of autism status using whole-exome sequencing data.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012468

By:

Wu, Qing;
Morrow, Eric M.;
Uzun, Ece D. Gamsiz

Publication type:

Article

Beyond IC<sub>50</sub>—A computational dynamic model of drug resistance in enzyme inhibition treatment.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012570

By:

Roadnight Sheehan, J.;
de Wijn, Astrid S.;
Freire, Thales Souza;
Friedman, Ran

Publication type:

Article

A modular protein language modelling approach to immunogenicity prediction.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012511

By:

O'Brien, Hugh;
Salm, Max;
Morton, Laura T.;
Szukszto, Maciej;
O'Farrell, Felix;
Boulton, Charlotte;
King, Laurence;
Bola, Supreet Kaur;
Becker, Pablo D.;
Craig, Andrew;
Nielsen, Morten;
Samuels, Yardena;
Swanton, Charles;
Mansour, Marc R.;
Hadrup, Sine Reker;
Quezada, Sergio A.

Publication type:

Article

A computational analysis of the oncogenic and anti-tumor immunity role of P4HA3 in human cancers.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012284

By:

Huang, Hong Yan;
Zhang, Fu Wei;
Yu, Jie;
Xiao, Yan Hong;
Zhu, Di;
Yi, XiaoLin;
Lin, XiaoHua;
Jin, Ming;
Jin, Hai Yun;
Huang, Yong Sheng;
Ren, Shu Wei

Publication type:

Article

During haptic communication, the central nervous system compensates distinctly for delay and noise.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012037

By:

Eden, Jonathan;
Ivanova, Ekaterina;
Burdet, Etienne

Publication type:

Article

Structure-aware annotation of leucine-rich repeat domains.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012526

By:

Xu, Boyan;
Cerbu, Alois;
Tralie, Christopher J.;
Lim, Daven;
Krasileva, Ksenia

Publication type:

Article

Harnessing the optimization of enzyme catalytic rates in engineering of metabolic phenotypes.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012576

By:

Razaghi-Moghadam, Zahra;
Soleymani Babadi, Fayaz;
Nikoloski, Zoran

Publication type:

Article

A mechanistic model of in vitro plasma activation to evaluate therapeutic kallikrein-kinin system inhibitors.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012552

By:

Rezvani-Sharif, Alireza;
Lioe, Hadi;
Dower, Steven K.;
Pelzing, Matthias;
Panousis, Con;
Harvie, Dalton J. E.;
Muir, Ineke L.

Publication type:

Article