Works matching IS 1553734X AND DT 2024 AND VI 20 AND IP 4

Results: 58

Synergistic epistasis among cancer drivers can rescue early tumors from the accumulation of deleterious passengers.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012081

By:

Alejandre, Carla;
Calle-Espinosa, Jorge;
Iranzo, Jaime

Publication type:

Article

Reconstruction Set Test (RESET): A computationally efficient method for single sample gene set testing based on randomized reduced rank reconstruction error.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012084

By:

Frost, H. Robert

Publication type:

Article

A novel hypergraph model for identifying and prioritizing personalized drivers in cancer.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012068

By:

Zhang, Naiqian;
Ma, Fubin;
Guo, Dong;
Pang, Yuxuan;
Wang, Chenye;
Zhang, Yusen;
Zheng, Xiaoqi;
Wang, Mingyi

Publication type:

Article

Wagers for work: Decomposing the costs of cognitive effort.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012060

By:

Master, Sarah L.;
Curtis, Clayton E.;
Dayan, Peter

Publication type:

Article

Combined multiplex panel test results are a poor estimate of disease prevalence without adjustment for test error.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012062

By:

Challen, Robert;
Chatzilena, Anastasia;
Qian, George;
Oben, Glenda;
Kwiatkowska, Rachel;
Hyams, Catherine;
Finn, Adam;
Tsaneva-Atanasova, Krasimira;
Danon, Leon

Publication type:

Article

Informing policy via dynamic models: Cholera in Haiti.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012032

By:

Wheeler, Jesse;
Rosengart, AnnaElaine;
Jiang, Zhuoxun;
Tan, Kevin;
Treutle, Noah;
Ionides, Edward L.

Publication type:

Article

Ensemble learning and ground-truth validation of synaptic connectivity inferred from spike trains.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011964

By:

Donner, Christian;
Bartram, Julian;
Hornauer, Philipp;
Kim, Taehoon;
Roqueiro, Damian;
Hierlemann, Andreas;
Obozinski, Guillaume;
Schröter, Manuel

Publication type:

Article

Bayesian workflow for time-varying transmission in stratified compartmental infectious disease transmission models.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011575

By:

Bouman, Judith A.;
Hauser, Anthony;
Grimm, Simon L.;
Wohlfender, Martin;
Bhatt, Samir;
Semenova, Elizaveta;
Gelman, Andrew;
Althaus, Christian L.;
Riou, Julien

Publication type:

Article

UNNT: A novel Utility for comparing Neural Net and Tree-based models.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011504

By:

Gutta, Vineeth;
Ganakammal, Satish Ranganathan;
Jones, Sara;
Beyers, Matthew;
Chandrasekaran, Sunita

Publication type:

Article

Human decision making balances reward maximization and policy compression.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012057

By:

Lai, Lucy;
Gershman, Samuel J.

Publication type:

Article

Recurrent neural networks that learn multi-step visual routines with reinforcement learning.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012030

By:

Mollard, Sami;
Wacongne, Catherine;
Bohte, Sander M.;
Roelfsema, Pieter R.

Publication type:

Article

Spatial transcriptome-guided multi-scale framework connects P. aeruginosa metabolic states to oxidative stress biofilm microenvironment.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012031

By:

Kuper, Tracy J.;
Islam, Mohammad Mazharul;
Peirce-Cottler, Shayn M.;
Papin, Jason A.;
Ford, Roseanne M

Publication type:

Article

Bayesian inference of structured latent spaces from neural population activity with the orthogonal stochastic linear mixing model.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011975

By:

Meng, Rui;
Bouchard, Kristofer E.

Publication type:

Article

Learning spatio-temporal patterns with Neural Cellular Automata.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011589

By:

Richardson, Alex D.;
Antal, Tibor;
Blythe, Richard A.;
Schumacher, Linus J.

Publication type:

Article

Evolutionary analyses of intrinsically disordered regions reveal widespread signals of conservation.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012028

By:

Singleton, Marc D.;
Eisen, Michael B.

Publication type:

Article

A weak coupling mechanism for the early steps of the recovery stroke of myosin VI: A free energy simulation and string method analysis.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012005

By:

Blanc, Florian E. C.;
Houdusse, Anne;
Cecchini, Marco

Publication type:

Article

Indirect reciprocity with Bayesian reasoning and biases.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011979

By:

Morsky, Bryce;
Plotkin, Joshua B.;
Akçay, Erol

Publication type:

Article

Emergent neural dynamics and geometry for generalization in a transitive inference task.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011954

By:

Kay, Kenneth;
Biderman, Natalie;
Khajeh, Ramin;
Beiran, Manuel;
Cueva, Christopher J.;
Shohamy, Daphna;
Jensen, Greg;
Wei, Xue-Xin;
Ferrera, Vincent P.;
Abbott, LF

Publication type:

Article

Method for cycle detection in sparse, irregularly sampled, long-term neuro-behavioral timeseries: Basis pursuit denoising with polynomial detrending of long-term, inter-ictal epileptiform activity.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011152

By:

Balzekas, Irena;
Trzasko, Joshua;
Yu, Grace;
Richner, Thomas J.;
Mivalt, Filip;
Sladky, Vladimir;
Gregg, Nicholas M.;
Van Gompel, Jamie;
Miller, Kai;
Croarkin, Paul E.;
Kremen, Vaclav;
Worrell, Gregory A.

Publication type:

Article

Validity conditions of approximations for a target-mediated drug disposition model: A novel first-order approximation and its comparison to other approximations.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012066

By:

Byun, Jong Hyuk;
Jeon, Hye Seon;
Yun, Hwi-yeol;
Kim, Jae Kyoung

Publication type:

Article

What does the mean mean? A simple test for neuroscience.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012000

By:

Tlaie, Alejandro;
Shapcott, Katharine;
van der Plas, Thijs L.;
Rowland, James;
Lees, Robert;
Keeling, Joshua;
Packer, Adam;
Tiesinga, Paul;
Schölvinck, Marieke L.;
Havenith, Martha N.

Publication type:

Article

MCell4 with BioNetGen: A Monte Carlo simulator of rule-based reaction-diffusion systems with Python interface.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011800

By:

Husar, Adam;
Ordyan, Mariam;
Garcia, Guadalupe C.;
Yancey, Joel G.;
Saglam, Ali S.;
Faeder, James R.;
Bartol, Thomas M.;
Kennedy, Mary B.;
Sejnowski, Terrence J.

Publication type:

Article

HGCLAMIR: Hypergraph contrastive learning with attention mechanism and integrated multi-view representation for predicting miRNA-disease associations.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011927

By:

Ouyang, Dong;
Liang, Yong;
Wang, Jinfeng;
Li, Le;
Ai, Ning;
Feng, Junning;
Lu, Shanghui;
Liao, Shuilin;
Liu, Xiaoying;
Xie, Shengli

Publication type:

Article

Neutral competition explains the clonal composition of neural organoids.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012054

By:

Pflug, Florian G.;
Haendeler, Simon;
Esk, Christopher;
Lindenhofer, Dominik;
Knoblich, Jürgen A.;
von Haeseler, Arndt

Publication type:

Article

Temperature-driven coordination of circadian transcriptional regulation.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012029

By:

Xu, Bingxian;
Hwangbo, Dae-Sung;
Saurabh, Sumit;
Rosensweig, Clark;
Allada, Ravi;
Kath, William L.;
Braun, Rosemary

Publication type:

Article

A phylogenetic method linking nucleotide substitution rates to rates of continuous trait evolution.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011995

By:

Gemmell, Patrick;
Sackton, Timothy B.;
Edwards, Scott V.;
Liu, Jun S.

Publication type:

Article

Locations and structures of influenza A virus packaging-associated signals and other functional elements via an in silico pipeline for predicting constrained features in RNA viruses.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012009

By:

Beniston, Emma;
Skittrall, Jordan P.

Publication type:

Article

Non-invasive assessment of stroke volume and cardiovascular parameters based on peripheral pressure waveform.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012013

By:

Wołos, Kamil;
Pstras, Leszek;
Debowska, Malgorzata;
Dabrowski, Wojciech;
Siwicka-Gieroba, Dorota;
Poleszczuk, Jan

Publication type:

Article

Mathematical analysis of left ventricular elastance with respect to afterload change during ejection phase.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011974

By:

Kato, Shiro;
Himeno, Yukiko;
Amano, Akira

Publication type:

Article

Ranking of cell clusters in a single-cell RNA-sequencing analysis framework using prior knowledge.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011550

By:

Oulas, Anastasis;
Savva, Kyriaki;
Karathanasis, Nestoras;
Spyrou, George M.

Publication type:

Article

CoVar: A generalizable machine learning approach to identify the coordinated regulators driving variational gene expression.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012016

By:

Roy, Satyaki;
Sheikh, Shehzad Z.;
Furey, Terrence S.

Publication type:

Article

Encoding surprise by retinal ganglion cells.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011965

By:

Despotović, Danica;
Joffrois, Corentin;
Marre, Olivier;
Chalk, Matthew

Publication type:

Article

Precise cortical contributions to sensorimotor feedback control during reactive balance.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011562

By:

Boebinger, Scott;
Payne, Aiden;
Martino, Giovanni;
Kerr, Kennedy;
Mirdamadi, Jasmine;
McKay, J. Lucas;
Borich, Michael;
Ting, Lena

Publication type:

Article

Generative Bayesian modeling to nowcast the effective reproduction number from line list data with missing symptom onset dates.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012021

By:

Lison, Adrian;
Abbott, Sam;
Huisman, Jana;
Stadler, Tanja

Publication type:

Article

Spatio-temporal spread of artemisinin resistance in Southeast Asia.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012017

By:

Flegg, Jennifer A.;
Kandanaarachchi, Sevvandi;
Guerin, Philippe J.;
Dondorp, Arjen M.;
Nosten, Francois H.;
Otienoburu, Sabina Dahlström;
Golding, Nick

Publication type:

Article

SubGE-DDI: A new prediction model for drug-drug interaction established through biomedical texts and drug-pairs knowledge subgraph enhancement.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011989

By:

Shi, Yiyang;
He, Mingxiu;
Chen, Junheng;
Han, Fangfang;
Cai, Yongming

Publication type:

Article

Gradient boosted decision trees reveal nuances of auditory discrimination behavior.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011985

By:

Griffiths, Carla S.;
Lebert, Jules M.;
Sollini, Joseph;
Bizley, Jennifer K.

Publication type:

Article

Dopamine encoding of novelty facilitates efficient uncertainty-driven exploration.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011516

By:

Wang, Yuhao;
Lak, Armin;
Manohar, Sanjay G.;
Bogacz, Rafal

Publication type:

Article

Network-neuron interactions underlying sensory responses of layer 5 pyramidal tract neurons in barrel cortex.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011468

By:

Bast, Arco;
Fruengel, Rieke;
de Kock, Christiaan P. J.;
Oberlaender, Marcel

Publication type:

Article

How robust are estimates of key parameters in standard viral dynamic models?

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011437

By:

Zitzmann, Carolin;
Ke, Ruian;
Ribeiro, Ruy M.;
Perelson, Alan S.

Publication type:

Article

Modeling single cell trajectory using forward-backward stochastic differential equations.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012015

By:

Zhang, Kevin;
Zhu, Junhao;
Kong, Dehan;
Zhang, Zhaolei

Publication type:

Article

StellarPath: Hierarchical-vertical multi-omics classifier synergizes stable markers and interpretable similarity networks for patient profiling.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012022

By:

Giudice, Luca;
Mohamed, Ahmed;
Malm, Tarja

Publication type:

Article

Ten simple rules for leading a successful undergraduate-intensive research lab.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011994

By:

Hickman, KJE;
Zahn, Geoffrey

Publication type:

Article

Mathematical model for the role of multiple pericentromeric repeats on heterochromatin assembly.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012027

By:

Ghimire, Puranjan;
Motamedi, Mo;
Joh, Richard

Publication type:

Article

Benchmarking multi-ancestry prostate cancer polygenic risk scores in a real-world cohort.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011990

By:

Shah, Yajas;
Kulm, Scott;
Nauseef, Jones T.;
Chen, Zhengming;
Elemento, Olivier;
Kensler, Kevin H.;
Sharaf, Ravi N.

Publication type:

Article

Perturbation Variability Does Not Influence Implicit Sensorimotor Adaptation.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011951

By:

Wang, Tianhe;
Avraham, Guy;
Tsay, Jonathan S.;
Abram, Sabrina J.;
Ivry, Richard B.

Publication type:

Article

DeepDynaForecast: Phylogenetic-informed graph deep learning for epidemic transmission dynamic prediction.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011351

By:

Sun, Chaoyue;
Fang, Ruogu;
Salemi, Marco;
Prosperi, Mattia;
Rife Magalis, Brittany

Publication type:

Article

Partial label learning for automated classification of single-cell transcriptomic profiles.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1012006

By:

Senoussi, Malek;
Artieres, Thierry;
Villoutreix, Paul

Publication type:

Article

A probabilistic knowledge graph for target identification.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011945

By:

Liu, Chang;
Xiao, Kaimin;
Yu, Cuinan;
Lei, Yipin;
Lyu, Kangbo;
Tian, Tingzhong;
Zhao, Dan;
Zhou, Fengfeng;
Tang, Haidong;
Zeng, Jianyang

Publication type:

Article

PIEZO1 regulates leader cell formation and cellular coordination during collective keratinocyte migration.

Published in:

PLoS Computational Biology, 2024, v. 20, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011855

By:

Chen, Jinghao;
Holt, Jesse R.;
Evans, Elizabeth L.;
Lowengrub, John S.;
Pathak, Medha M.

Publication type:

Article