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New Articles in PLOS Computational Biology

PUBLISHED: July 01, 2022 to July 31, 2022


Ten simple rules to host an inclusive conference


Inferring the nature of linguistic computations in the brain

Ten simple rules for leveraging virtual interaction to build higher-level learning into bioinformatics short courses


Ten simple rules for designing and running a computing minor for bio/chem students

Research Articles

A structured model and likelihood approach to estimate yeast prion propagon replication rates and their asymmetric transmission

Stimulus presentation can enhance spiking irregularity across subcortical and cortical regions

ATRPred: A machine learning based tool for clinical decision making of anti-TNF treatment in rheumatoid arthritis patients

nAdder: A scale-space approach for the 3D analysis of neuronal traces

A Bayesian method for identifying associations between response variables and bacterial community composition

Gaze-dependent evidence accumulation predicts multi-alternative risky choice behaviour

Trial-by-trial predictions of subjective time from human brain activity

Inverse folding based pre-training for the reliable identification of intrinsic transcription terminators

Multi-scale model suggests the trade-off between protein and ATP demand as a driver of metabolic changes during yeast replicative ageing

Optimal control of the spatial allocation of COVID-19 vaccines: Italy as a case study

Role of actin filaments and cis binding in cadherin clustering and patterning

Model-based translation of DNA damage signaling dynamics across cell types

Non-zero mean alpha oscillations revealed with computational model and empirical data

Thalamic deep brain stimulation paradigm to reduce consciousness: Cortico-striatal dynamics implicated in mechanisms of consciousness

Analysis of the docking property of host variants of hACE2 for SARS-CoV-2 in a large cohort

Local and collective transitions in sparsely-interacting ecological communities

The accuracy of absolute differential abundance analysis from relative count data

RNANetMotif: Identifying sequence-structure RNA network motifs in RNA-protein binding sites

AC-PCoA: Adjustment for confounding factors using principal coordinate analysis

Fides: Reliable trust-region optimization for parameter estimation of ordinary differential equation models

What are housekeeping genes?

NucleoMap: A computational tool for identifying nucleosomes in ultra-high resolution contact maps

Modelling livestock infectious disease control policy under differing social perspectives on vaccination behaviour

If you don't let it in, you don't have to get it out: Thought preemption as a method to control unwanted thoughts

Leveraging a physiologically-based quantitative translational modeling platform for designing B cell maturation antigen-targeting bispecific T cell engagers for treatment of multiple myeloma

Dimensionality reduction of longitudinal 'omics data using modern tensor factorizations

Explainable deep transfer learning model for disease risk prediction using high-dimensional genomic data

Network resonance can be generated independently at distinct levels of neuronal organization

Single-cell network biology characterizes cell type gene regulation for drug repurposing and phenotype prediction in Alzheimer's disease

Sample-efficient identification of high-dimensional antibiotic synergy with a normalized diagonal sampling design

Drug repurposing based on a quantum-inspired method versus classical fingerprinting uncovers potential antivirals against SARS-CoV-2

Modulation transfer functions for audiovisual speech

Suboptimal human inference can invert the bias-variance trade-off for decisions with asymmetric evidence

To what extent naringenin binding and membrane depolarization shape mitoBK channel gating'A machine learning approach

Modeling scenarios for mitigating outbreaks in congregate settings

Stochastic fluctuations promote ordered pattern formation of cells in the Notch-Delta signaling pathway

Haisu: Hierarchically supervised nonlinear dimensionality reduction

Asymmetric and adaptive reward coding via normalized reinforcement learning

Modelling the modulation of cortical Up-Down state switching by astrocytes

The spectrum of covariance matrices of randomly connected recurrent neuronal networks with linear dynamics

Pooling strategies in V1 can account for the functional and structural diversity across species

Helix 8 in chemotactic receptors of the complement system

Heterogeneity of Rift Valley fever virus transmission potential across livestock hosts, quantified through a model-based analysis of host viral load and vector infection

Uncertainty quantification in cerebral circulation simulations focusing on the collateral flow: Surrogate model approach with machine learning

Simulations of tumor growth and response to immunotherapy by coupling a spatial agent-based model with a whole-patient quantitative systems pharmacology model

Chemophoresis engine: A general mechanism of ATPase-driven cargo transport

Graphia: A platform for the graph-based visualisation and analysis of high dimensional data

A model for the intrinsic limit of cancer therapy: Duality of treatment-induced cell death and treatment-induced stemness

Examining the impact of ICU population interaction structure on modeled colonization dynamics of Staphylococcus aureus

The computational relationship between reinforcement learning, social inference, and paranoia

The dopamine circuit as a reward-taxis navigation system

Epidemiological and evolutionary consequences of different types of CRISPR-Cas systems

Suprathreshold perceptual decisions constrain models of confidence

Investigating microscale patchiness of motile microbes under turbulence in a simulated convective mixed layer

Cheater suppression and stochastic clearance through quorum sensing

Physiological characterization of electrodermal activity enables scalable near real-time autonomic nervous system activation inference

Binding mechanism of oseltamivir and influenza neuraminidase suggests perspectives for the design of new anti-influenza drugs


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