Phase estimation is a critical tool for analyzing oscillatory signals. However, for oscillatory signals in the brain, invasive measurement techniques have the potential to alter oscillatory dynamics. Here we show the results of a new phase estimation technique that can be applied to data from intact neural tissue. Yao et al 2025
Image Credit: Yao et al.
Education
Eleven quick tips for writing a Bioconductor package
PLOS Computational Biology: published March 19, 2025 | https://doi.org/10.1371/journal.pcbi.1012856
Research Articles
Modeling decision-making under uncertainty with qualitative outcomes
PLOS Computational Biology: published March 3, 2025 | https://doi.org/10.1371/journal.pcbi.1012440
Post-processing and weighted combination of infectious disease nowcasts
PLOS Computational Biology: published March 3, 2025 | https://doi.org/10.1371/journal.pcbi.1012836
Suprachiasmatic nucleus-wide estimation of oscillatory temporal dynamics
PLOS Computational Biology: published March 6, 2025 | https://doi.org/10.1371/journal.pcbi.1012855
Penalised regression improves imputation of cell-type specific expression using RNA-seq data from mixed cell populations compared to domain-specific methods
PLOS Computational Biology: published March 7, 2025 | https://doi.org/10.1371/journal.pcbi.1012859
Efficient numerosity estimation under limited time
PLOS Computational Biology: published March 7, 2025 | https://doi.org/10.1371/journal.pcbi.1012790
DySCo: A general framework for dynamic functional connectivity
PLOS Computational Biology: published March 7, 2025 | https://doi.org/10.1371/journal.pcbi.1012795
iSoMAs: Finding isoform expression and somatic mutation associations in human cancers
PLOS Computational Biology: published March 7, 2025 | https://doi.org/10.1371/journal.pcbi.1012847
Mathematical modeling reveals ferritin as the strongest cellular driver of dietary iron transfer block in enterocytes
PLOS Computational Biology: published March 7, 2025 | https://doi.org/10.1371/journal.pcbi.1012374
Exploring the transmission of cognitive task information through optimal brain pathways
PLOS Computational Biology: published March 7, 2025 | https://doi.org/10.1371/journal.pcbi.1012870
Computational modelling identifies primary mediators of crosstalk between DNA damage and oxidative stress responses
PLOS Computational Biology: published March 10, 2025 | https://doi.org/10.1371/journal.pcbi.1012844
Internal cohesion gradient as a novel mechanism of collective cell migration
PLOS Computational Biology: published March 10, 2025 | https://doi.org/10.1371/journal.pcbi.1012769
Predicting the diversity of photosynthetic light-harvesting using thermodynamics and machine learning
PLOS Computational Biology: published March 11, 2025 | https://doi.org/10.1371/journal.pcbi.1012845
Metabolic network reconstruction as a resource for analyzing Salmonella Typhimurium SL1344 growth in the mouse intestine
PLOS Computational Biology: published March 11, 2025 | https://doi.org/10.1371/journal.pcbi.1012869
Mixed recurrent connectivity in primate prefrontal cortex
PLOS Computational Biology: published March 11, 2025 | https://doi.org/10.1371/journal.pcbi.1012867
RBC-GEM: A genome-scale metabolic model for systems biology of the human red blood cell
PLOS Computational Biology: published March 12, 2025 | https://doi.org/10.1371/journal.pcbi.1012109
Synthetic population generation with public health characteristics for spatial agent-based models
PLOS Computational Biology: published March 17, 2025 | https://doi.org/10.1371/journal.pcbi.1012439
Pre-training artificial neural networks with spontaneous retinal activity improves motion prediction in natural scenes
PLOS Computational Biology: published March 17, 2025 | https://doi.org/10.1371/journal.pcbi.1012830
Machine learning-based prediction reveals kinase MAP4K4 regulates neutrophil differentiation through phosphorylating apoptosis-related proteins
PLOS Computational Biology: published March 17, 2025 | https://doi.org/10.1371/journal.pcbi.1012877
Predictive reward-prediction errors of climbing fiber inputs integrate modular reinforcement learning with supervised learning
PLOS Computational Biology: published March 17, 2025 | https://doi.org/10.1371/journal.pcbi.1012899
Generative AI extracts ecological meaning from the complex three dimensional shapes of bird bills
PLOS Computational Biology: published March 17, 2025 | https://doi.org/10.1371/journal.pcbi.1012887
lncreased risk of slippage upon disengagement of the mitotic checkpoint
PLOS Computational Biology: published March 19, 2025 | https://doi.org/10.1371/journal.pcbi.1012879
How immunity shapes the long-term dynamics of influenza H3N2
PLOS Computational Biology: published March 20, 2025 | https://doi.org/10.1371/journal.pcbi.1012893
Unknotting RNA: A method to resolve computational artifacts
PLOS Computational Biology: published March 20, 2025 | https://doi.org/10.1371/journal.pcbi.1012843
Gauge fixing for sequence-function relationships
PLOS Computational Biology: published March 20, 2025 | https://doi.org/10.1371/journal.pcbi.1012818
Investigation of hemodynamic bulk flow patterns caused by aortic stenosis using a combined 4D Flow MRI-CFD framework
PLOS Computational Biology: published March 27, 2025 | https://doi.org/10.1371/journal.pcbi.1012467
Analysis of systemic effects of dioxin on human health through template-and-anchor modeling
PLOS Computational Biology: published March 27, 2025 | https://doi.org/10.1371/journal.pcbi.1012840
Computational studies reveal structural characterization and novel families of Puccinia striiformis f. sp. tritici effectors
PLOS Computational Biology: published March 28, 2025 | https://doi.org/10.1371/journal.pcbi.1012503
An integrative network approach for longitudinal stratification in Parkinson’s disease
PLOS Computational Biology: published March 28, 2025 | https://doi.org/10.1371/journal.pcbi.1012857
Methods
TphPMF: A microbiome data imputation method using hierarchical Bayesian Probabilistic Matrix Factorization
PLOS Computational Biology: published March 11, 2025 | https://doi.org/10.1371/journal.pcbi.1012858