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A framework for deriving analytic steady states of biochemical reaction networks

PLoS computational biology, 2023-04, Vol.19 (4), p.e1011039-e1011039

2023

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

PLoS computational biology, 2022-07, Vol.18 (7), p.e1010319

2022

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Deep reinforcement learning for optimal experimental design in biology

PLoS computational biology, 2022-11, Vol.18 (11), p.e1010695-e1010695

2022

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A variational autoencoder trained with priors from canonical pathways increases the interpretability of transcriptome data

PLoS computational biology, 2024-07, Vol.20 (7), p.e1011198

2024

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Efficient Bayesian inference for stochastic agent-based models

PLoS computational biology, 2022-10, Vol.18 (10), p.e1009508-e1009508

2022

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Computational optogenetics: empirically-derived voltage- and light-sensitive channelrhodopsin-2 model

PLoS computational biology, 2013-09, Vol.9 (9), p.e1003220-e1003220

2013

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Non-invasive assessment of stroke volume and cardiovascular parameters based on peripheral pressure waveform

PLoS computational biology, 2024-04, Vol.20 (4), p.e1012013-e1012013

2024

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Likelihood-ratio test statistic for the finite-sample case in nonlinear ordinary differential equation models

PLoS computational biology, 2023-09, Vol.19 (9), p.e1011417-e1011417

2023

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HAT: Hypergraph analysis toolbox

PLoS computational biology, 2023-06, Vol.19 (6), p.e1011190-e1011190

2023

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RMDGCN: Prediction of RNA methylation and disease associations based on graph convolutional network with attention mechanism

PLoS computational biology, 2023-12, Vol.19 (12), p.e1011677-e1011677

2023

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A kinetic model of iron trafficking in growing Saccharomyces cerevisiae cells; applying mathematical methods to minimize the problem of sparse data and generate viable autoregulatory mechanisms

PLoS computational biology, 2023-12, Vol.19 (12), p.e1011701-e1011701

2023

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Metabolic modeling of sex-specific liver tissue suggests mechanism of differences in toxicological responses

PLoS computational biology, 2023-08, Vol.19 (8), p.e1010927-e1010927

2023

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The biomechanics of chewing and suckling in the infant: A potential mechanism for physiologic metopic suture closure

PLoS computational biology, 2023-06, Vol.19 (6), p.e1011227-e1011227

2023

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Conserved and divergent signals in 5’ splice site sequences across fungi, metazoa and plants

PLoS computational biology, 2023-10, Vol.19 (10), p.e1011540-e1011540

2023

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Design of an adaptable intrafascicular electrode (AIR) for selective nerve stimulation by model-based optimization

PLoS computational biology, 2023-05, Vol.19 (5), p.e1011184-e1011184

2023

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Stochastic modelling of a three-dimensional glycogen granule synthesis and impact of the branching enzyme

PLoS computational biology, 2023-05, Vol.19 (5), p.e1010694-e1010694

2023

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Identifying a developmental transition in honey bees using gene expression data

PLoS computational biology, 2023-09, Vol.19 (9), p.e1010704-e1010704

2023

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Identifying prognostic subgroups of luminal-A breast cancer using deep autoencoders and gene expressions

PLoS computational biology, 2023-05, Vol.19 (5), p.e1011197-e1011197

2023

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An Emerging Allee Effect Is Critical for Tumor Initiation and Persistence

PLoS computational biology, 2015-09, Vol.11 (9), p.e1004366-e1004366

2015

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Spatially resolved in silico modeling of NKG2D signaling kinetics suggests a key role of NKG2D and Vav1 Co-clustering in generating natural killer cell activation

PLoS computational biology, 2022-05, Vol.18 (5), p.e1010114-e1010114

2022

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Multi-view clustering by CPS-merge analysis with application to multimodal single-cell data

PLoS computational biology, 2023-04, Vol.19 (4), p.e1011044-e1011044

2023

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A time-series analysis of blood-based biomarkers within a 25-year longitudinal dolphin cohort

PLoS computational biology, 2023-02, Vol.19 (2), p.e1010890-e1010890

2023

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Escherichia coli peptidoglycan structure and mechanics as predicted by atomic-scale simulations

PLoS computational biology, 2014-02, Vol.10 (2), p.e1003475

2014

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Resonant model-A new paradigm for modeling an action potential of biological cells

PloS one, 2019-05, Vol.14 (5), p.e0216999

2019

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Model-based approach for predicting the impact of genetic modifications on product yield in biopharmaceutical manufacturing—Application to influenza vaccine production

PLoS computational biology, 2020-06, Vol.16 (6), p.e1007810-e1007810

2020

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