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Small interfering RNA  
PLOS Computational Biology  
Liebig’s law of the minimum in the TGF-β/SMAD pathway

Yuchao Li, Difan Deng, Chris Tina Höfer, Jihye Kim, Won Do Heo, Quanbin Xu, Xuedong Liu, Zhike Zi

Research Article | published 16 May 2024 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1012072

Views: 851Citations: 0Saves: 1 • Shares: 1

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

Puranjan Ghimire, Mo Motamedi, Richard Joh

Research Article | published 10 Apr 2024 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1012027

Views: 952Citations: 2Saves: 2 • Shares: 0

Trafficking dynamics of VEGFR1, VEGFR2, and NRP1 in human endothelial cells

Sarvenaz Sarabipour, Karina Kinghorn, Kaitlyn M. Quigley, Anita Kovacs-Kasa, Brian H. Annex, Victoria L. Bautch, Feilim Mac Gabhann

Research Article | published 07 Feb 2024 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1011798

Views: 1567Citations: 7Saves: 11 • Shares: 5

FindAdapt: A python package for fast and accurate adapter detection in small RNA sequencing

Hua-Chang Chen, Jing Wang, Yu Shyr, Qi Liu

Software | published 22 Jan 2024 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1011786

Views: 1253Citations: 2Saves: 12 • Shares: 3

A fast lasso-based method for inferring higher-order interactions

Kieran Elmes, Astra Heywood, Zhiyi Huang, Alex Gavryushkin

Research Article | published 29 Dec 2022 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1010730

Views: 1743Citations: 1Saves: 9 • Shares: 3

SPOROS: A pipeline to analyze DISE/6mer seed toxicity

Elizabeth T. Bartom, Masha Kocherginsky, Bidur Paudel, Aparajitha Vaidyanathan, Ashley Haluck-Kangas, Monal Patel, Kaitlyn L. O’Shea, Andrea E. Murmann, Marcus E. Peter

Research Article | published 31 Mar 2022 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1010022

Views: 1878Citations: 11Saves: 14 • Shares: 4

A network-based approach to integrate nutrient microenvironment in the prediction of synthetic lethality in cancer metabolism

Iñigo Apaolaza, Edurne San José-Enériz, Luis V. Valcarcel, Xabier Agirre, Felipe Prosper, Francisco J. Planes

Research Article | published 14 Mar 2022 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1009395

Views: 2401Citations: 9Saves: 18 • Shares: 6

Molecular signatures of silencing suppression degeneracy from a complex RNA virus

Silvia Ambrós, Neus Gómez-Muñoz, Silvia Giménez-Santamarina, Javier Sánchez-Vicente, Josep Navarro-López, Fernando Martínez, José-Antonio Daròs, Guillermo Rodrigo

Research Article | published 28 Jun 2021 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1009166

Views: 1888Citations: 4Saves: 7 • Shares: 5

Temporal dynamics of a CSF1R signaling gene regulatory network involved in epilepsy

Claude Gérard, Laurane De Mot, Sabine Cordi, Jonathan van Eyll, Frédéric P. Lemaigre

Research Article | published 05 Apr 2021 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1008854

Views: 2497Citations: 3Saves: 12 • Shares: 1

Combinatorial mathematical modelling approaches to interrogate rear retraction dynamics in 3D cell migration

Joseph H. R. Hetmanski, Matthew C. Jones, Fatima Chunara, Jean-Marc Schwartz, Patrick T. Caswell

Research Article | published 10 Mar 2021 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1008213

Views: 2432Citations: 8Saves: 15 • Shares: 10

Model-based analysis of response and resistance factors of cetuximab treatment in gastric cancer cell lines

Elba Raimúndez, Simone Keller, Gwen Zwingenberger, Karolin Ebert, Sabine Hug, Fabian J. Theis, Dieter Maier, Birgit Luber, Jan Hasenauer

Research Article | published 02 Mar 2020 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1007147

Views: 3572Citations: 9Saves: 23 • Shares: 2

Host factor prioritization for pan-viral genetic perturbation screens using random intercept models and network propagation

Simon Dirmeier, Christopher Dächert, Martijn van Hemert, Ali Tas, Natacha S. Ogando, Frank van Kuppeveld, Ralf Bartenschlager, Lars Kaderali, Marco Binder, Niko Beerenwinkel

Research Article | published 10 Feb 2020 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1007587

Views: 4858Citations: 12Saves: 268 • Shares: 5

Sparse discriminative latent characteristics for predicting cancer drug sensitivity from genomic features

David A. Knowles, Gina Bouchard, Sylvia Plevritis

Research Article | published 28 May 2019 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1006743

Views: 3050Citations: 6Saves: 29 • Shares: 5

Bowhead: Bayesian modelling of cell velocity during concerted cell migration

Mathias Engel, James Longden, Jesper Ferkinghoff-Borg, Xavier Robin, Gaye Saginc, Rune Linding

Research Article | published 08 Jan 2018 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1005900

Views: 2586Citations: 1Saves: 19 • Shares: 6

LASSIM—A network inference toolbox for genome-wide mechanistic modeling

Rasmus Magnusson, Guido Pio Mariotti, Mattias Köpsén, William Lövfors, Danuta R. Gawel, Rebecka Jörnsten, Jörg Linde, Torbjörn E. M. Nordling, Elin Nyman, Sylvie Schulze, Colm E. Nestor, Huan Zhang, Gunnar Cedersund, Mikael Benson, Andreas Tjärnberg, Mika Gustafsson

Research Article | published 22 Jun 2017 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1005608

Views: 4716Citations: 7Saves: 74 • Shares: 5

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