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Quantitative structural mechanobiology of platelet-driven blood clot contraction

Nature communications, 2017-11, Vol.8 (1), p.1274-10, Article 1274

2017

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Structural basis for the nonlinear mechanics of fibrin networks under compression

Biomaterials, 2014-08, Vol.35 (25), p.6739-6749

2014

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Bare bones pattern formation: a core regulatory network in varying geometries reproduces major features of vertebrate limb development and evolution

PloS one, 2010-05, Vol.5 (5), p.e10892-e10892

2010

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Integrating machine learning and multiscale modeling-perspectives, challenges, and opportunities in the biological, biomedical, and behavioral sciences

NPJ digital medicine, 2019-11, Vol.2 (1), p.115-115, Article 115

2019

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Interactions between Tau and Different Conformations of Tubulin: Implications for Tau Function and Mechanism

Journal of molecular biology, 2017-05, Vol.429 (9), p.1424-1438

2017

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A Hybrid Approach for Segmentation and Tracking of Myxococcus Xanthus Swarms

IEEE transactions on medical imaging, 2016-09, Vol.35 (9), p.2074-2084

2016

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Three-dimensional multi-scale model of deformable platelets adhesion to vessel wall in blood flow

Philosophical transactions of the Royal Society of London. Series A: Mathematical, physical, and engineering sciences, 2014-08, Vol.372 (2021), p.20130380

2014

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Periodic reversal of direction allows Myxobacteria to swarm

Proceedings of the National Academy of Sciences - PNAS, 2009-01, Vol.106 (4), p.1222-1227

2009

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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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Fibrin networks regulate protein transport during thrombus development

PLoS computational biology, 2013-06, Vol.9 (6), p.e1003095-e1003095

2013

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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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Type IV pili interactions promote intercellular association and moderate swarming of Pseudomonas aeruginosa

Proceedings of the National Academy of Sciences - PNAS, 2014-12, Vol.111 (50), p.18013-18018

2014

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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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Quantitative structural mechanobiology of platelet-driven blood clot contraction

Structural basis for the nonlinear mechanics of fibrin networks under compression

Bare bones pattern formation: a core regulatory network in varying geometries reproduces major features of vertebrate limb development and evolution

Integrating machine learning and multiscale modeling-perspectives, challenges, and opportunities in the biological, biomedical, and behavioral sciences

Interactions between Tau and Different Conformations of Tubulin: Implications for Tau Function and Mechanism

A Hybrid Approach for Segmentation and Tracking of Myxococcus Xanthus Swarms

Three-dimensional multi-scale model of deformable platelets adhesion to vessel wall in blood flow

Periodic reversal of direction allows Myxobacteria to swarm

A framework for deriving analytic steady states of biochemical reaction networks

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

Deep reinforcement learning for optimal experimental design in biology

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

Fibrin networks regulate protein transport during thrombus development

Efficient Bayesian inference for stochastic agent-based models

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

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

Type IV pili interactions promote intercellular association and moderate swarming of Pseudomonas aeruginosa

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

HAT: Hypergraph analysis toolbox

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

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

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

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

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

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

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