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Protein loop structure prediction by community-based deep learning and its application to antibody CDR H3 loop modeling

Hyeonuk Woo, Yubeen Kim, Chaok Seok

Research Article | published 24 Jun 2024 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1012239

Views: 1423Citations: 0Saves: 0 • Shares: 0

Effective cell membrane tension protects red blood cells against malaria invasion

Haleh Alimohamadi, Padmini Rangamani

Research Article | published 04 Dec 2023 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1011694

Views: 1025Citations: 7Saves: 5 • Shares: 3

Computational modeling of multiscale collateral blood supply in a whole-brain-scale arterial network

Tomohiro Otani, Nozomi Nishimura, Hiroshi Yamashita, Satoshi Ii, Shigeki Yamada, Yoshiyuki Watanabe, Marie Oshima, Shigeo Wada

Research Article | published 08 Sep 2023 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1011452

Views: 1333Citations: 6Saves: 0 • Shares: 0

Remeshing flexible membranes under the control of free energy

Xinxin Wang, Gaudenz Danuser

Research Article | published 05 Dec 2022 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1010766

Views: 1379Citations: 4Saves: 4 • Shares: 10

Fast protein structure comparison through effective representation learning with contrastive graph neural networks

Chunqiu Xia, Shi-Hao Feng, Ying Xia, Xiaoyong Pan, Hong-Bin Shen

Research Article | published 24 Mar 2022 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1009986

Views: 6914Citations: 20Saves: 31 • Shares: 11

A deep generative model of 3D single-cell organization

Rory M. Donovan-Maiye, Jackson M. Brown, Caleb K. Chan, Liya Ding, Calysta Yan, Nathalie Gaudreault, Julie A. Theriot, Mary M. Maleckar, Theo A. Knijnenburg, Gregory R. Johnson

Research Article | published 18 Jan 2022 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1009155

Views: 5055Citations: 28Saves: 33 • Shares: 7

De novo protein fold families expand the designable ligand binding site space

Xingjie Pan, Tanja Kortemme

Research Article | published 22 Nov 2021 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1009620

Views: 2607Citations: 3Saves: 17 • Shares: 14

What do Eulerian and Hamiltonian cycles have to do with genome assembly?

Paul Medvedev, Mihai Pop

Education | published 20 May 2021 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1008928

Views: 4725Citations: 7Saves: 21 • Shares: 49

Fixation patterns in simple choice reflect optimal information sampling

Frederick Callaway, Antonio Rangel, Thomas L. Griffiths

Research Article | published 26 Mar 2021 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1008863

Views: 6255Citations: 80Saves: 72 • Shares: 44

A reconstruction theory of relational schema induction

Steven Phillips

Research Article | published 26 Jan 2021 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1008641

Views: 1941Citations: 4Saves: 0 • Shares: 0

Chemical graph generators

Mehmet Aziz Yirik, Christoph Steinbeck

Topic Page | published 05 Jan 2021 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1008504

Views: 5414Citations: 5Saves: 32 • Shares: 2

Generalized estimating equation modeling on correlated microbiome sequencing data with longitudinal measures

Bo Chen, Wei Xu

Research Article | published 08 Sep 2020 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1008108

Views: 4938Citations: 13Saves: 40 • Shares: 3

Non-uniform distribution of myosin-mediated forces governs red blood cell membrane curvature through tension modulation

Haleh Alimohamadi, Alyson S. Smith, Roberta B. Nowak, Velia M. Fowler, Padmini Rangamani

Research Article | published 26 May 2020 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1007890

Views: 4106Citations: 41Saves: 34 • Shares: 2

Synchronization dependent on spatial structures of a mesoscopic whole-brain network

Hannah Choi, Stefan Mihalas

Research Article | published 23 Apr 2019 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1006978

Views: 4763Citations: 37Saves: 61 • Shares: 8

Demonstrating aspects of multiscale modeling by studying the permeation pathway of the human ZnT2 zinc transporter

Yarden Golan, Raphael Alhadeff, Fabian Glaser, Assaf Ganoth, Arieh Warshel, Yehuda G. Assaraf

Research Article | published 02 Nov 2018 PLOS Computational Biology

https://doi.org/10.1371/journal.pcbi.1006503

Views: 3896Citations: 13Saves: 20 • Shares: 2

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