Works matching IS 1553734X AND DT 2023 AND VI 19 AND IP 4

Results: 57

Fidelity of hyperbolic space for Bayesian phylogenetic inference.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011084

By:

Macaulay, Matthew;
Darling, Aaron;
Fourment, Mathieu

Publication type:

Article

Dual contribution of ASIC1a channels in the spinal processing of pain information by deep projection neurons revealed by computational modeling.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010993

By:

Chafaï, Magda;
Delrocq, Ariane;
Inquimbert, Perrine;
Pidoux, Ludivine;
Delanoe, Kevin;
Toft, Maurizio;
Brau, Frederic;
Lingueglia, Eric;
Veltz, Romain;
Deval, Emmanuel

Publication type:

Article

A fast machine-learning-guided primer design pipeline for selective whole genome amplification.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010137

By:

Dwivedi-Yu, Jane A.;
Oppler, Zachary J.;
Mitchell, Matthew W.;
Song, Yun S.;
Brisson, Dustin

Publication type:

Article

The representational hierarchy in human and artificial visual systems in the presence of object-scene regularities.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011086

By:

Bracci, Stefania;
Mraz, Jakob;
Zeman, Astrid;
Leys, Gaëlle;
Op de Beeck, Hans

Publication type:

Article

Correction: Spatial and temporal correlations in human cortex are inherently linked and predicted by functional hierarchy, vigilance state as well as antiepileptic drug load.

Published in:

2023

By:

Müller, Paul Manuel;
Meisel, Christian

Publication type:

Correction Notice

Personalized prediction of the secondary oocytes number after ovarian stimulation: A machine learning model based on clinical and genetic data.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011020

By:

Zieliński, Krystian;
Pukszta, Sebastian;
Mickiewicz, Małgorzata;
Kotlarz, Marta;
Wygocki, Piotr;
Zieleń, Marcin;
Drzewiecka, Dominika;
Drzyzga, Damian;
Kloska, Anna;
Jakóbkiewicz-Banecka, Joanna

Publication type:

Article

A high-frequency mobility big-data reveals how COVID-19 spread across professions, locations and age groups.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011083

By:

Zhao, Chen;
Zhang, Jialu;
Hou, Xiaoyue;
Yeung, Chi Ho;
Zeng, An

Publication type:

Article

Establishing effective cross-disciplinary collaboration: Combining simple rules for reproducible computational research, a good data management plan, and good research practice.

Published in:

2023

By:

Stawarczyk, Bogna;
Roos, Małgorzata

Publication type:

Editorial

Fusing an agent-based model of mosquito population dynamics with a statistical reconstruction of spatio-temporal abundance patterns.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010424

By:

Cavany, Sean M.;
España, Guido;
Lloyd, Alun L.;
Vazquez-Prokopec, Gonzalo M.;
Astete, Helvio;
Waller, Lance A.;
Kitron, Uriel;
Scott, Thomas W.;
Morrison, Amy C.;
Reiner Jr, Robert C.;
Perkins, T. Alex

Publication type:

Article

Selective control of synaptic plasticity in heterogeneous networks through transcranial alternating current stimulation (tACS).

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010736

By:

Pariz, Aref;
Trotter, Daniel;
Hutt, Axel;
Lefebvre, Jeremie

Publication type:

Article

Dopamine depletion leads to pathological synchronization of distinct basal ganglia loops in the beta band.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010645

By:

Ortone, Andrea;
Vergani, Alberto Arturo;
Ahmadipour, Mahboubeh;
Mannella, Riccardo;
Mazzoni, Alberto

Publication type:

Article

Correction: Mathematical modeling of the molecular switch of TNFR1-mediated signaling pathways applying Petri net formalism and in silico knockout analysis.

Published in:: 2023
Publication type:: Correction Notice

Recurrent predictive coding models for associative memory employing covariance learning.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010719

By:

Tang, Mufeng;
Salvatori, Tommaso;
Millidge, Beren;
Song, Yuhang;
Lukasiewicz, Thomas;
Bogacz, Rafal

Publication type:

Article

Identifying the engagement of a brain network during a targeted tDCS-fMRI experiment using a machine learning approach.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011012

By:

Shinde, Anant;
Mohapatra, Sovesh;
Schlaug, Gottfried

Publication type:

Article

Network analysis of toxin production in Clostridioides difficile identifies key metabolic dependencies.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011076

By:

Powers, Deborah A.;
Jenior, Matthew L.;
Kolling, Glynis L.;
Papin, Jason A.

Publication type:

Article

Genome-scale metabolic modeling reveals metabolic trade-offs associated with lipid production in Rhodotorula toruloides.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011009

By:

Reķēna, Alīna;
Pinheiro, Marina J.;
Bonturi, Nemailla;
Belouah, Isma;
Tammekivi, Eliise;
Herodes, Koit;
Kerkhoven, Eduard J.;
Lahtvee, Petri-Jaan

Publication type:

Article

Model certainty in cellular network-driven processes with missing data.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011004

By:

Irvin, Michael W.;
Ramanathan, Arvind;
Lopez, Carlos F.

Publication type:

Article

Varying molecular interactions explain aspects of crowder-dependent enzyme function of a viral protease.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011054

By:

Ostrowska, Natalia;
Feig, Michael;
Trylska, Joanna

Publication type:

Article

Shape-driven deep neural networks for fast acquisition of aortic 3D pressure and velocity flow fields.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011055

By:

Pajaziti, Endrit;
Montalt-Tordera, Javier;
Capelli, Claudio;
Sivera, Raphaël;
Sauvage, Emilie;
Quail, Michael;
Schievano, Silvia;
Muthurangu, Vivek

Publication type:

Article

Efficient coding of natural scenes improves neural system identification.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011037

By:

Qiu, Yongrong;
Klindt, David A.;
Szatko, Klaudia P.;
Gonschorek, Dominic;
Hoefling, Larissa;
Schubert, Timm;
Busse, Laura;
Bethge, Matthias;
Euler, Thomas

Publication type:

Article

MultiCens: Multilayer network centrality measures to uncover molecular mediators of tissue-tissue communication.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011022

By:

Kumar, Tarun;
Sethuraman, Ramanathan;
Mitra, Sanga;
Ravindran, Balaraman;
Narayanan, Manikandan

Publication type:

Article

Bioinspired figure-ground discrimination via visual motion smoothing.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011077

By:

Wu, Zhihua;
Guo, Aike

Publication type:

Article

Calibrating agent-based models to tumor images using representation learning.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011070

By:

Cess, Colin G.;
Finley, Stacey D.

Publication type:

Article

MitoTNT: Mitochondrial Temporal Network Tracking for 4D live-cell fluorescence microscopy data.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011060

By:

Wang, Zichen;
Natekar, Parth;
Tea, Challana;
Tamir, Sharon;
Hakozaki, Hiroyuki;
Schöneberg, Johannes

Publication type:

Article

Quantifying cooperative multisite binding in the hub protein LC8 through Bayesian inference.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011059

By:

Estelle, Aidan B.;
George, August;
Barbar, Elisar J.;
Zuckerman, Daniel M.

Publication type:

Article

The functional logic of odor information processing in the Drosophila antennal lobe.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011043

By:

Lazar, Aurel A.;
Liu, Tingkai;
Yeh, Chung-Heng

Publication type:

Article

A multispecies framework for modeling adaptive immunity and immunotherapy in cancer.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010976

By:

Qi, Timothy;
Vincent, Benjamin;
Cao, Yanguang

Publication type:

Article

Minor variations in multicellular life cycles have major effects on adaptation.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010698

By:

Isaksson, Hanna;
Brännström, Åke;
Libby, Eric

Publication type:

Article

Ten simple rules for working with other people's code.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011031

By:

Pilgrim, Charlie;
Kent, Paul;
Hosseini, Kasra;
Chalstrey, Ed

Publication type:

Article

Bridging the gap between mechanistic biological models and machine learning surrogates.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010988

By:

Gherman, Ioana M.;
Abdallah, Zahraa S.;
Pang, Wei;
Gorochowski, Thomas E.;
Grierson, Claire S.;
Marucci, Lucia

Publication type:

Article

Being noisy in a crowd: Differential selective pressure on gene expression noise in model gene regulatory networks.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010982

By:

Puzović, Nataša;
Madaan, Tanvi;
Dutheil, Julien Y.

Publication type:

Article

Sequence similarity governs generalizability of de novo deep learning models for RNA secondary structure prediction.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011047

By:

Qiu, Xiangyun

Publication type:

Article

How synaptic strength, short-term plasticity, and input synchrony contribute to neuronal spike output.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011046

By:

Buchholz, Moritz O.;
Gastone Guilabert, Alexandra;
Ehret, Benjamin;
Schuhknecht, Gregor F. P.

Publication type:

Article

Multi-view clustering by CPS-merge analysis with application to multimodal single-cell data.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011044

By:

Zhang, Lixiang;
Lin, Lin;
Li, Jia

Publication type:

Article

Rare-event sampling analysis uncovers the fitness landscape of the genetic code.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011034

By:

Omachi, Yuji;
Saito, Nen;
Furusawa, Chikara

Publication type:

Article

A combined experimental-computational approach uncovers a role for the Golgi matrix protein Giantin in breast cancer progression.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010995

By:

Ghannoum, Salim;
Fantini, Damiano;
Zahoor, Muhammad;
Reiterer, Veronika;
Phuyal, Santosh;
Leoncio Netto, Waldir;
Sørensen, Øystein;
Iyer, Arvind;
Sengupta, Debarka;
Prasmickaite, Lina;
Mælandsmo, Gunhild Mari;
Köhn-Luque, Alvaro;
Farhan, Hesso

Publication type:

Article

High rifampicin peak plasma concentrations accelerate the slow phase of bacterial decline in tuberculosis patients: Evidence for heteroresistance.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011000

By:

Martinecz, Antal;
Boeree, Martin J.;
Diacon, Andreas H.;
Dawson, Rodney;
Hemez, Colin;
Aarnoutse, Rob E.;
Abel zur Wiesch, Pia

Publication type:

Article

Improving the workflow to crack Small, Unbalanced, Noisy, but Genuine (SUNG) datasets in bioacoustics: The case of bonobo calls.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010325

By:

Arnaud, Vincent;
Pellegrino, François;
Keenan, Sumir;
St-Gelais, Xavier;
Mathevon, Nicolas;
Levréro, Florence;
Coupé, Christophe

Publication type:

Article

Toward an optimal contraception dosing strategy.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010073

By:

Gavina, Brenda Lyn A.;
de los Reyes V, Aurelio A.;
Olufsen, Mette S.;
Lenhart, Suzanne;
Ottesen, Johnny T.

Publication type:

Article

Gate-based quantum computing for protein design.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011033

By:

Khatami, Mohammad Hassan;
Mendes, Udson C.;
Wiebe, Nathan;
Kim, Philip M.

Publication type:

Article

A framework for deriving analytic steady states of biochemical reaction networks.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011039

By:

Hernandez, Bryan S.;
Lubenia, Patrick Vincent N.;
Johnston, Matthew D.;
Kim, Jae Kyoung

Publication type:

Article

Purely STDP-based assembly dynamics: Stability, learning, overlaps, drift and aging.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011006

By:

Manz, Paul;
Memmesheimer, Raoul-Martin

Publication type:

Article

Complex spatiotemporal oscillations emerge from transverse instabilities in large-scale brain networks.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010781

By:

Clusella, Pau;
Deco, Gustavo;
Kringelbach, Morten L.;
Ruffini, Giulio;
Garcia-Ojalvo, Jordi

Publication type:

Article

Diverse role of NMDA receptors for dendritic integration of neural dynamics.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011019

By:

Tang, Yuanhong;
Zhang, Xingyu;
An, Lingling;
Yu, Zhaofei;
Liu, Jian K.

Publication type:

Article

Ceramide-1-phosphate transfer protein enhances lipid transport by disrupting hydrophobic lipid–membrane contacts.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010992

By:

Rogers, Julia R.;
Geissler, Phillip L.

Publication type:

Article

In-silico EEG biomarkers of reduced inhibition in human cortical microcircuits in depression.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010986

By:

Mazza, Frank;
Guet-McCreight, Alexandre;
Valiante, Taufik A.;
Griffiths, John D.;
Hay, Etay

Publication type:

Article

Delayed skeletal muscle repair following inflammatory damage in simulated agent-based models of muscle regeneration.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1011042

By:

Khuu, Stephanie;
Fernandez, Justin W.;
Handsfield, Geoffrey G.

Publication type:

Article

Increased A-to-I RNA editing in atherosclerosis and cardiomyopathies.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010923

By:

Mann, Tomer D.;
Kopel, Eli;
Eisenberg, Eli;
Levanon, Erez Y.

Publication type:

Article

Pleiotropy promotes the evolution of inducible immune responses in a model of host-pathogen coevolution.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010445

By:

Martin, Reese A.;
Tate, Ann T.

Publication type:

Article

GenoVi, an open-source automated circular genome visualizer for bacteria and archaea.

Published in:

PLoS Computational Biology, 2023, v. 19, n. 4, p. 1, doi. 10.1371/journal.pcbi.1010998

By:

Cumsille, Andrés;
Durán, Roberto E.;
Rodríguez-Delherbe, Andrea;
Saona-Urmeneta, Vicente;
Cámara, Beatriz;
Seeger, Michael;
Araya, Mauricio;
Jara, Nicolás;
Buil-Aranda, Carlos

Publication type:

Article