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Extracting phylogenetic dimensions of coevolution reveals hidden functional signals.
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- Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-021-04260-1
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Protein language models trained on multiple sequence alignments learn phylogenetic relationships.
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- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-34032-y
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Bilayer Elasticity at the Nanoscale: The Need for New Terms.
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- PLoS ONE, 2012, v. 7, n. 11, p. 1, doi. 10.1371/journal.pone.0048306
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- Article
Correlations from structure and phylogeny combine constructively in the inference of protein partners from sequences.
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- PLoS Computational Biology, 2022, v. 18, n. 5, p. 1, doi. 10.1371/journal.pcbi.1010147
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- Article
Quantifying the Role of Population Subdivision in Evolution on Rugged Fitness Landscapes.
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- PLoS Computational Biology, 2014, v. 10, n. 8, p. 1, doi. 10.1371/journal.pcbi.1003778
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Generative power of a protein language model trained on multiple sequence alignments.
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- eLife, 2023, p. 1, doi. 10.7554/eLife.79854
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- Article
Evolutionary history expands the range of signaling interactions in hybrid multikinase networks.
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- Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-91260-w
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- Article
Combining phylogeny and coevolution improves the inference of interaction partners among paralogous proteins.
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- PLoS Computational Biology, 2023, v. 19, n. 3, p. 1, doi. 10.1371/journal.pcbi.1011010
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- Article
Adapt or Perish: Evolutionary Rescue in a Gradually Deteriorating Environment.
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- Genetics, 2020, v. 216, n. 2, p. 573, doi. 10.1534/genetics.120.303624
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- Article
Impact of phylogeny on the inference of functional sectors from protein sequence data.
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- PLoS Computational Biology, 2024, v. 20, n. 9, p. 1, doi. 10.1371/journal.pcbi.1012091
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- Article
Mutant fate in spatially structured populations on graphs: Connecting models to experiments.
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- PLoS Computational Biology, 2024, v. 20, n. 9, p. 1, doi. 10.1371/journal.pcbi.1012424
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Resist or perish: Fate of a microbial population subjected to a periodic presence of antimicrobial.
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- PLoS Computational Biology, 2020, v. 16, n. 4, p. 1, doi. 10.1371/journal.pcbi.1007798
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- Article
Phylogenetic correlations can suffice to infer protein partners from sequences.
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- PLoS Computational Biology, 2019, v. 15, n. 10, p. 1, doi. 10.1371/journal.pcbi.1007179
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- Article
Revealing evolutionary constraints on proteins through sequence analysis.
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- PLoS Computational Biology, 2019, v. 15, n. 4, p. 1, doi. 10.1371/journal.pcbi.1007010
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- Article
Antibody‐mediated crosslinking of gut bacteria hinders the spread of antibiotic resistance.
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- Evolution, 2019, v. 73, n. 6, p. 1077, doi. 10.1111/evo.13730
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A convolutional neural network segments yeast microscopy images with high accuracy.
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- Nature Communications, 2020, v. 11, n. 1, p. N.PAG, doi. 10.1038/s41467-020-19557-4
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- Article
Bacterial biofilm under flow: First a physical struggle to stay, then a matter of breathing.
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- PLoS ONE, 2017, v. 12, n. 4, p. 1, doi. 10.1371/journal.pone.0175197
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- Article
Inferring interaction partners from protein sequences using mutual information.
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- PLoS Computational Biology, 2018, v. 14, n. 11, p. 1, doi. 10.1371/journal.pcbi.1006401
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- Article