Works matching IS 1553734X AND DT 2021 AND VI 17 AND IP 2

Results: 106

A versatile workflow to integrate RNA-seq genomic and transcriptomic data into mechanistic models of signaling pathways.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008748

By:

Garrido-Rodriguez, Martín;
Lopez-Lopez, Daniel;
Ortuno, Francisco M.;
Peña-Chilet, María;
Muñoz, Eduardo;
Calzado, Marco A.;
Dopazo, Joaquin

Publication type:

Article

Ten simple rules for hosting artists in a scientific lab.

Published in:

2021

By:

Rillig, Matthias C.;
Bonneval, Karine;
de Lutz, Christian;
Lehmann, Johannes;
Mansour, India;
Rapp, Regine;
Spačal, Saša;
Meyer, Vera

Publication type:

Editorial

Using a multiple-delivery-mode training approach to develop local capacity and infrastructure for advanced bioinformatics in Africa.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008640

By:

Ras, Verena;
Botha, Gerrit;
Aron, Shaun;
Lennard, Katie;
Allali, Imane;
Claassen-Weitz, Shantelle;
Mwaikono, Kilaza Samson;
Kennedy, Dane;
Holmes, Jessica R.;
Rendon, Gloria;
Panji, Sumir;
Fields, Christopher J;
Mulder, Nicola

Publication type:

Article

Correction: Biophysically grounded mean-field models of neural populations under electrical stimulation.

Published in:

2021

By:

Cakan, Caglar;
Obermayer, Klaus

Publication type:

Correction Notice

Unsupervised manifold learning of collective behavior.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1007811

By:

Titus, Mathew;
Hagstrom, George;
Watson, James R.

Publication type:

Article

Extracellular matrix density regulates the formation of tumour spheroids through cell migration.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008764

By:

Gonçalves, Inês G.;
Garcia-Aznar, Jose Manuel

Publication type:

Article

Generating functional protein variants with variational autoencoders.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008736

By:

Hawkins-Hooker, Alex;
Depardieu, Florence;
Baur, Sebastien;
Couairon, Guillaume;
Chen, Arthur;
Bikard, David

Publication type:

Article

Evidence for spreading seizure as a cause of theta-alpha activity electrographic pattern in stereo-EEG seizure recordings.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008731

By:

Sip, Viktor;
Scholly, Julia;
Guye, Maxime;
Bartolomei, Fabrice;
Jirsa, Viktor

Publication type:

Article

Estimating the cumulative incidence of SARS-CoV-2 with imperfect serological tests: Exploiting cutoff-free approaches.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008728

By:

Bouman, Judith A.;
Riou, Julien;
Bonhoeffer, Sebastian;
Regoes, Roland R.

Publication type:

Article

Balrog: A universal protein model for prokaryotic gene prediction.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008727

By:

Sommer, Markus J.;
Salzberg, Steven L.

Publication type:

Article

Integrated information structure collapses with anesthetic loss of conscious arousal in Drosophila melanogaster.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008722

By:

Leung, Angus;
Cohen, Dror;
van Swinderen, Bruno;
Tsuchiya, Naotsugu

Publication type:

Article

Ancestral haplotype reconstruction in endogamous populations using identity-by-descent.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008638

By:

Finke, Kelly;
Kourakos, Michael;
Brown, Gabriela;
Dang, Huyen Trang;
Tan, Shi Jie Samuel;
Simons, Yuval B.;
Ramdas, Shweta;
Schäffer, Alejandro A.;
Kember, Rachel L.;
Bućan, Maja;
Mathieson, Sara

Publication type:

Article

Impact of between-tissue differences on pan-cancer predictions of drug sensitivity.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008720

By:

Lloyd, John P.;
Soellner, Matthew B.;
Merajver, Sofia D.;
Li, Jun Z.

Publication type:

Article

DEXOM: Diversity-based enumeration of optimal context-specific metabolic networks.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008730

By:

Rodríguez-Mier, Pablo;
Poupin, Nathalie;
de Blasio, Carlo;
Le Cam, Laurent;
Jourdan, Fabien

Publication type:

Article

An integrated, modular approach to data science education in microbiology.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008661

By:

Dill-McFarland, Kimberly A.;
König, Stephan G.;
Mazel, Florent;
Oliver, David C.;
McEwen, Lisa M.;
Hong, Kris Y.;
Hallam, Steven J.

Publication type:

Article

Ten simple rules for writing compelling recommendation letters.

Published in:

2021

By:

Kong, Jennifer H.;
Steele, Latishya J.;
Botham, Crystal M.

Publication type:

Editorial

Using prototyping to choose a bioinformatics workflow management system.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008622

By:

Jackson, Michael;
Kavoussanakis, Kostas;
Wallace, Edward W. J.

Publication type:

Article

On the evolution and development of morphological complexity: A view from gene regulatory networks.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008570

By:

Hagolani, Pascal F.;
Zimm, Roland;
Vroomans, Renske;
Salazar-Ciudad, Isaac

Publication type:

Article

Hybridized distance- and contact-based hierarchical structure modeling for folding soluble and membrane proteins.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008753

By:

Roche, Rahmatullah;
Bhattacharya, Sutanu;
Bhattacharya, Debswapna

Publication type:

Article

Evolution of heterogeneous perceptual limits and indifference in competitive foraging.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008734

By:

Mann, Richard P.

Publication type:

Article

Computational modeling of the gut microbiota reveals putative metabolic mechanisms of recurrent Clostridioides difficile infection.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008782

By:

Henson, Michael A.

Publication type:

Article

Calcium-vesicles perform active diffusion in the sea urchin embryo during larval biomineralization.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008780

By:

Winter, Mark R.;
Morgulis, Miri;
Gildor, Tsvia;
Cohen, Andrew R.;
Ben-Tabou de-Leon, Smadar

Publication type:

Article

Nonlinear effects of intrinsic dynamics on temporal encoding in a model of avian auditory cortex.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008768

By:

Fehrman, Christof;
Robbins, Tyler D.;
Meliza, C. Daniel

Publication type:

Article

Rapid 3D phenotypic analysis of neurons and organoids using data-driven cell segmentation-free machine learning.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008630

By:

Mergenthaler, Philipp;
Hariharan, Santosh;
Pemberton, James M.;
Lourenco, Corey;
Penn, Linda Z.;
Andrews, David W.

Publication type:

Article

A mathematical model of the role of aggregation in sonic hedgehog signalling.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008562

By:

Derrick, Daniel J. A.;
Wolton, Kathryn;
Currie, Richard A.;
Tindall, Marcus John

Publication type:

Article

On the open-source landscape of PLOS Computational Biology.

Published in:

2021

By:

Boudreau, Mathieu;
Poline, Jean-Baptiste;
Bellec, Pierre;
Stikov, Nikola

Publication type:

Editorial

Spectrally specific temporal analyses of spike-train responses to complex sounds: A unifying framework.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008155

By:

Parida, Satyabrata;
Bharadwaj, Hari;
Heinz, Michael G.

Publication type:

Article

Quantitative profiling of protease specificity.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008101

By:

Ratnikov, Boris I.;
Cieplak, Piotr;
Remacle, Albert G.;
Nguyen, Elise;
Smith, Jeffrey W.

Publication type:

Article

Margination and adhesion dynamics of tumor cells in a real microvascular network.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008746

By:

Wang, Sitong;
Ye, Ting;
Li, Guansheng;
Zhang, Xuejiao;
Shi, Huixin

Publication type:

Article

An antigenic diversification threshold for falciparum malaria transmission at high endemicity.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008729

By:

He, Qixin;
Pascual, Mercedes

Publication type:

Article

Deep6mA: A deep learning framework for exploring similar patterns in DNA N6-methyladenine sites across different species.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008767

By:

Li, Zutan;
Jiang, Hangjin;
Kong, Lingpeng;
Chen, Yuanyuan;
Lang, Kun;
Fan, Xiaodan;
Zhang, Liangyun;
Pian, Cong

Publication type:

Article

Efficient and flexible Integration of variant characteristics in rare variant association studies using integrated nested Laplace approximation.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1007784

By:

Susak, Hana;
Serra-Saurina, Laura;
Demidov, German;
Rabionet, Raquel;
Domènech, Laura;
Bosio, Mattia;
Muyas, Francesc;
Estivill, Xavier;
Escaramís, Geòrgia;
Ossowski, Stephan

Publication type:

Article

Cholinergic neuromodulation of inhibitory interneurons facilitates functional integration in whole-brain models.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008737

By:

Coronel-Oliveros, Carlos;
Cofré, Rodrigo;
Orio, Patricio

Publication type:

Article

FastTrack: An open-source software for tracking varying numbers of deformable objects.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008697

By:

Gallois, Benjamin;
Candelier, Raphaël

Publication type:

Article

Positive interactions within and between populations decrease the likelihood of evolutionary rescue.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008732

By:

Goldberg, Yaron;
Friedman, Jonathan

Publication type:

Article

Sensing ecosystem dynamics via audio source separation: A case study of marine soundscapes off northeastern Taiwan.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008698

By:

Lin, Tzu-Hao;
Akamatsu, Tomonari;
Tsao, Yu

Publication type:

Article

Ten simple rules for getting started with command-line bioinformatics.

Published in:

2021

By:

Brandies, Parice A.;
Hogg, Carolyn J.

Publication type:

Editorial

Ten simple rules for starting (and sustaining) an academic data science initiative.

Published in:

2021

By:

Parker, Micaela S.;
Burgess, Arlyn E.;
Bourne, Philip E.

Publication type:

Editorial

Ten simple rules for running and managing virtual internships.

Published in:

2021

By:

Werner, Johannes;
Jeske, Debora

Publication type:

Editorial

Brain-inspired model for early vocal learning and correspondence matching using free-energy optimization.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008566

By:

Pitti, Alexandre;
Quoy, Mathias;
Boucenna, Sofiane;
Lavandier, Catherine

Publication type:

Article

Ten simple rules for navigating the computational aspect of an interdisciplinary PhD.

Published in:

2021

By:

Islam, Sabrina;
Wells, Christine A.

Publication type:

Editorial

Bayesian parameter estimation for automatic annotation of gene functions using observational data and phylogenetic trees.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1007948

By:

Vega Yon, George G.;
Thomas, Duncan C.;
Morrison, John;
Mi, Huaiyu;
Thomas, Paul D.;
Marjoram, Paul

Publication type:

Article

On the importance of evolving phenotype distributions on evolutionary diversification.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008733

By:

Henriques, Gil Jorge Barros;
Ito, Koichi;
Hauert, Christoph;
Doebeli, Michael

Publication type:

Article

Spec2Vec: Improved mass spectral similarity scoring through learning of structural relationships.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008724

By:

Huber, Florian;
Ridder, Lars;
Verhoeven, Stefan;
Spaaks, Jurriaan H.;
Diblen, Faruk;
Rogers, Simon;
van der Hooft, Justin J. J.

Publication type:

Article

Arrhythmogenic effects of ultra-long and bistable cardiac action potentials.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008683

By:

Heitmann, Stewart;
Shpak, Anton;
Vandenberg, Jamie I.;
Hill, Adam P.

Publication type:

Article

Estimating the extrinsic incubation period of malaria using a mechanistic model of sporogony.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008658

By:

Stopard, Isaac J.;
Churcher, Thomas S.;
Lambert, Ben

Publication type:

Article

A model of developmental canalization, applied to human cranial form.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008381

By:

Mitteroecker, Philipp;
Stansfield, Ekaterina

Publication type:

Article

Computational prediction of drug response in short QT syndrome type 1 based on measurements of compound effect in stem cell-derived cardiomyocytes.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008089

By:

Jæger, Karoline Horgmo;
Wall, Samuel;
Tveito, Aslak

Publication type:

Article

The intrinsically disordered N-terminus of the voltage-dependent anion channel.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008750

By:

Preto, Jordane;
Krimm, Isabelle

Publication type:

Article

From heterogeneous healthcare data to disease-specific biomarker networks: A hierarchical Bayesian network approach.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 2, p. 1, doi. 10.1371/journal.pcbi.1008735

By:

Becker, Ann-Kristin;
Dörr, Marcus;
Felix, Stephan B.;
Frost, Fabian;
Grabe, Hans J.;
Lerch, Markus M.;
Nauck, Matthias;
Völker, Uwe;
Völzke, Henry;
Kaderali, Lars

Publication type:

Article