Artwork composed of the spectrogram of a bonobo call and photographs of three adult bonobo individuals from La Vallée des Singes (France). Arnaud et al 2023
Image Credit: François Pellegrino
Education
Ten simple rules for working with other people’s code
PLOS Computational Biology: published April 20, 2023 | https://doi.org/10.1371/journal.pcbi.1011031
Perspective
Establishing effective cross-disciplinary collaboration: Combining simple rules for reproducible computational research, a good data management plan, and good research practice
PLOS Computational Biology: published April 27, 2023 | https://doi.org/10.1371/journal.pcbi.1011052
Review
Bridging the gap between mechanistic biological models and machine learning surrogates
PLOS Computational Biology: published April 20, 2023 | https://doi.org/10.1371/journal.pcbi.1010988
Research Articles
Applying a GAN-based classifier to improve transcriptome-based prognostication in breast cancer
PLOS Computational Biology: published April 3, 2023 | https://doi.org/10.1371/journal.pcbi.1011035
The contribution of the basal ganglia and cerebellum to motor learning: A neuro-computational approach
PLOS Computational Biology: published April 3, 2023 | https://doi.org/10.1371/journal.pcbi.1011024
Uncovering the organization of neural circuits with Generalized Phase Locking Analysis
PLOS Computational Biology: published April 3, 2023 | https://doi.org/10.1371/journal.pcbi.1010983
Mathematical modeling of plus-strand RNA virus replication to identify broad-spectrum antiviral treatment strategies
PLOS Computational Biology: published April 4, 2023 | https://doi.org/10.1371/journal.pcbi.1010423
GenoVi, an open-source automated circular genome visualizer for bacteria and archaea
PLOS Computational Biology: published April 4, 2023 | https://doi.org/10.1371/journal.pcbi.1010998
Neural spiking for causal inference and learning
PLOS Computational Biology: published April 4, 2023 | https://doi.org/10.1371/journal.pcbi.1011005
Inferring assembly-curving trends of bacterial micro-compartment shell hexamers from crystal structure arrangements
PLOS Computational Biology: published April 5, 2023 | https://doi.org/10.1371/journal.pcbi.1011038
Pleiotropy promotes the evolution of inducible immune responses in a model of host-pathogen coevolution
PLOS Computational Biology: published April 6, 2023 | https://doi.org/10.1371/journal.pcbi.1010445
Delayed skeletal muscle repair following inflammatory damage in simulated agent-based models of muscle regeneration
PLOS Computational Biology: published April 6, 2023 | https://doi.org/10.1371/journal.pcbi.1011042
Increased A-to-I RNA editing in atherosclerosis and cardiomyopathies
PLOS Computational Biology: published April 10, 2023 | https://doi.org/10.1371/journal.pcbi.1010923
Diverse role of NMDA receptors for dendritic integration of neural dynamics
PLOS Computational Biology: published April 10, 2023 | https://doi.org/10.1371/journal.pcbi.1011019
Ceramide-1-phosphate transfer protein enhances lipid transport by disrupting hydrophobic lipid–membrane contacts
PLOS Computational Biology: published April 10, 2023 | https://doi.org/10.1371/journal.pcbi.1010992
In-silico EEG biomarkers of reduced inhibition in human cortical microcircuits in depression
PLOS Computational Biology: published April 10, 2023 | https://doi.org/10.1371/journal.pcbi.1010986
Purely STDP-based assembly dynamics: Stability, learning, overlaps, drift and aging
PLOS Computational Biology: published April 12, 2023 | https://doi.org/10.1371/journal.pcbi.1011006
Identifying the engagement of a brain network during a targeted tDCS-fMRI experiment using a machine learning approach
PLOS Computational Biology: published April 12, 2023 | https://doi.org/10.1371/journal.pcbi.1011012
Gate-based quantum computing for protein design
PLOS Computational Biology: published April 12, 2023 | https://doi.org/10.1371/journal.pcbi.1011033
Complex spatiotemporal oscillations emerge from transverse instabilities in large-scale brain networks
PLOS Computational Biology: published April 12, 2023 | https://doi.org/10.1371/journal.pcbi.1010781
Toward an optimal contraception dosing strategy
PLOS Computational Biology: published April 13, 2023 | https://doi.org/10.1371/journal.pcbi.1010073
A framework for deriving analytic steady states of biochemical reaction networks
PLOS Computational Biology: published April 13, 2023 | https://doi.org/10.1371/journal.pcbi.1011039
High rifampicin peak plasma concentrations accelerate the slow phase of bacterial decline in tuberculosis patients: Evidence for heteroresistance
PLOS Computational Biology: published April 13, 2023 | https://doi.org/10.1371/journal.pcbi.1011000
Improving the workflow to crack Small, Unbalanced, Noisy, but Genuine (SUNG) datasets in bioacoustics: The case of bonobo calls
PLOS Computational Biology: published April 13, 2023 | https://doi.org/10.1371/journal.pcbi.1010325
Recurrent predictive coding models for associative memory employing covariance learning
PLOS Computational Biology: published April 14, 2023 | https://doi.org/10.1371/journal.pcbi.1010719
Dual contribution of ASIC1a channels in the spinal processing of pain information by deep projection neurons revealed by computational modeling
PLOS Computational Biology: published April 17, 2023 | https://doi.org/10.1371/journal.pcbi.1010993
A combined experimental-computational approach uncovers a role for the Golgi matrix protein Giantin in breast cancer progression
PLOS Computational Biology: published April 17, 2023 | https://doi.org/10.1371/journal.pcbi.1010995
Sequence similarity governs generalizability of de novo deep learning models for RNA secondary structure prediction
PLOS Computational Biology: published April 17, 2023 | https://doi.org/10.1371/journal.pcbi.1011047
Multi-view clustering by CPS-merge analysis with application to multimodal single-cell data
PLOS Computational Biology: published April 17, 2023 | https://doi.org/10.1371/journal.pcbi.1011044
How synaptic strength, short-term plasticity, and input synchrony contribute to neuronal spike output
PLOS Computational Biology: published April 17, 2023 | https://doi.org/10.1371/journal.pcbi.1011046
Rare-event sampling analysis uncovers the fitness landscape of the genetic code
PLOS Computational Biology: published April 17, 2023 | https://doi.org/10.1371/journal.pcbi.1011034
A fast machine-learning-guided primer design pipeline for selective whole genome amplification
PLOS Computational Biology: published April 17, 2023 | https://doi.org/10.1371/journal.pcbi.1010137
Being noisy in a crowd: Differential selective pressure on gene expression noise in model gene regulatory networks
PLOS Computational Biology: published April 20, 2023 | https://doi.org/10.1371/journal.pcbi.1010982
Calibrating agent-based models to tumor images using representation learning
PLOS Computational Biology: published April 21, 2023 | https://doi.org/10.1371/journal.pcbi.1011070
Quantifying cooperative multisite binding in the hub protein LC8 through Bayesian inference
PLOS Computational Biology: published April 21, 2023 | https://doi.org/10.1371/journal.pcbi.1011059
Bioinspired figure-ground discrimination via visual motion smoothing
PLOS Computational Biology: published April 21, 2023 | https://doi.org/10.1371/journal.pcbi.1011077
A multispecies framework for modeling adaptive immunity and immunotherapy in cancer
PLOS Computational Biology: published April 21, 2023 | https://doi.org/10.1371/journal.pcbi.1010976
The functional logic of odor information processing in the Drosophila antennal lobe
PLOS Computational Biology: published April 21, 2023 | https://doi.org/10.1371/journal.pcbi.1011043
MitoTNT: Mitochondrial Temporal Network Tracking for 4D live-cell fluorescence microscopy data
PLOS Computational Biology: published April 21, 2023 | https://doi.org/10.1371/journal.pcbi.1011060
Minor variations in multicellular life cycles have major effects on adaptation
PLOS Computational Biology: published April 21, 2023 | https://doi.org/10.1371/journal.pcbi.1010698
MultiCens: Multilayer network centrality measures to uncover molecular mediators of tissue-tissue communication
PLOS Computational Biology: published April 24, 2023 | https://doi.org/10.1371/journal.pcbi.1011022
Efficient coding of natural scenes improves neural system identification
PLOS Computational Biology: published April 24, 2023 | https://doi.org/10.1371/journal.pcbi.1011037
Shape-driven deep neural networks for fast acquisition of aortic 3D pressure and velocity flow fields
PLOS Computational Biology: published April 24, 2023 | https://doi.org/10.1371/journal.pcbi.1011055
Varying molecular interactions explain aspects of crowder-dependent enzyme function of a viral protease
PLOS Computational Biology: published April 25, 2023 | https://doi.org/10.1371/journal.pcbi.1011054
Fidelity of hyperbolic space for Bayesian phylogenetic inference
PLOS Computational Biology: published April 26, 2023 | https://doi.org/10.1371/journal.pcbi.1011084
Model certainty in cellular network-driven processes with missing data
PLOS Computational Biology: published April 26, 2023 | https://doi.org/10.1371/journal.pcbi.1011004
Network analysis of toxin production in Clostridioides difficile identifies key metabolic dependencies
PLOS Computational Biology: published April 26, 2023 | https://doi.org/10.1371/journal.pcbi.1011076
Genome-scale metabolic modeling reveals metabolic trade-offs associated with lipid production in Rhodotorula toruloides
PLOS Computational Biology: published April 26, 2023 | https://doi.org/10.1371/journal.pcbi.1011009
Personalized prediction of the secondary oocytes number after ovarian stimulation: A machine learning model based on clinical and genetic data
PLOS Computational Biology: published April 27, 2023 | https://doi.org/10.1371/journal.pcbi.1011020
Fusing an agent-based model of mosquito population dynamics with a statistical reconstruction of spatio-temporal abundance patterns
PLOS Computational Biology: published April 27, 2023 | https://doi.org/10.1371/journal.pcbi.1010424
Selective control of synaptic plasticity in heterogeneous networks through transcranial alternating current stimulation (tACS)
PLOS Computational Biology: published April 27, 2023 | https://doi.org/10.1371/journal.pcbi.1010736
Dopamine depletion leads to pathological synchronization of distinct basal ganglia loops in the beta band
PLOS Computational Biology: published April 27, 2023 | https://doi.org/10.1371/journal.pcbi.1010645
A high-frequency mobility big-data reveals how COVID-19 spread across professions, locations and age groups
PLOS Computational Biology: published April 27, 2023 | https://doi.org/10.1371/journal.pcbi.1011083
The representational hierarchy in human and artificial visual systems in the presence of object-scene regularities
PLOS Computational Biology: published April 28, 2023 | https://doi.org/10.1371/journal.pcbi.1011086
Corrections
Correction: Bayesian parameter estimation for dynamical models in systems biology
PLOS Computational Biology: published April 5, 2023 | https://doi.org/10.1371/journal.pcbi.1011041
Related Articles
Correction: Mathematical modeling of the molecular switch of TNFR1-mediated signaling pathways applying Petri net formalism and in silico knockout analysis
PLOS Computational Biology: published April 14, 2023 | https://doi.org/10.1371/journal.pcbi.1011065
Related Articles
Correction: Spatial and temporal correlations in human cortex are inherently linked and predicted by functional hierarchy, vigilance state as well as antiepileptic drug load
PLOS Computational Biology: published April 27, 2023 | https://doi.org/10.1371/journal.pcbi.1011094