Multi-scale modeling of tissues using CompuCell3D (Q29906688)

ORCID Public Data File 2021

James A. Glazier

6

object named as

James A Glazier

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author name string

Maciej H Swat

1

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Gilberto L Thomas

2

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Abbas Shirinifard

4

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Dimitrij Hmeljak

https://www.ncbi.nlm.nih.gov/pubmed/22482955

5

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language of work or name

English

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publication date

2012

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published in

Methods in Cell Biology

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volume

110

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page(s)

325-66

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1 reference

Computer simulations of cell sorting due to differential adhesion

12 May 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

A multi-cell, multi-scale model of vertebrate segmentation and somite formation

13 May 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

3D multi-cell simulation of tumor growth and angiogenesis

13 May 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Contact-inhibited chemotaxis in de novo and sprouting blood-vessel growth

13 May 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Differential adhesion in morphogenesis: a modern view

13 May 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

The RNA silencing pathway: the bits and pieces that matter

13 May 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models

13 May 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Simulation of biological cell sorting using a two-dimensional extended Potts model

13 May 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Dynamic mechanisms of blood vessel growth.

13 May 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

From Genes to Organisms Via the Cell A Problem-Solving Environment for Multicellular Development

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Simulation of single-species bacterial-biofilm growth using the Glazier-Graner-Hogeweg model and the CompuCell3D modeling environment

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Coordinated action of N-CAM, N-cadherin, EphA4, and ephrinB2 translates genetic prepatterns into structure during somitogenesis in chick

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Cell elongation is key to in silico replication of in vitro vasculogenesis and subsequent remodeling

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Multicellular computer simulation of morphogenesis: blastocoel roof thinning and matrix assembly in Xenopus laevis.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Elastic instability in growing yeast colonies

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Control of epidermal stem cell clusters by Notch-mediated lateral induction

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

How amoeboids self-organize into a fruiting body: multicellular coordination in Dictyostelium discoideum

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Diffusion and deformations of single hydra cells in cellular aggregates.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

A role for fibronectin in cell sorting.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Cell sorting in the presence of cytochalasin B

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Auxin transport is sufficient to generate a maximum and gradient guiding root growth.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Multiscale dynamics of biological cells with chemotactic interactions: from a discrete stochastic model to a continuous description.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Mathematical modeling of regulatory mechanisms in yeast colony development

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Bioinformatic analysis of functional differences between the immunoproteasome and the constitutive proteasome

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Space and the persistence of male-killing endosymbionts in insect populations.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Intercellular adhesion and cancer invasion: a discrete simulation using the extended Potts model.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Pattern formation of the cone mosaic in the zebrafish retina: a cell rearrangement model

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Modelling Dictyostelium discoideum morphogenesis: the culmination.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Formation and maintenance of distinctive cell patterns by coexpression of membrane-bound ligands and their receptors.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Biological implications of a discrete mathematical model for collagen deposition and alignment in dermal wound repair.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Mathematical modelling of juxtacrine patterning.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Migration and thermotaxis of dictyostelium discoideum slugs, a model study

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

26 November 2018

Finishing the Cell Cycle

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Cell-differentiation rules that generate regular mosaic patterns: modelling motivated by cone mosaic formation in fish retina.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Pattern formation by lateral inhibition with feedback: a mathematical model of delta-notch intercellular signalling.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3612985

Evolving mechanisms of morphogenesis: on the interplay between differential adhesion and cell differentiation

26 November 2018

1 reference

12 December 2020

Recycling probability and dynamical properties of germinal center reactions

1 reference

12 December 2020

Secretion rates and levels of vascular endothelial growth factor in clone A or HCT-8 human colon tumour cells as a function of oxygen concentration

1 reference

12 December 2020

Monte Carlo approach to tissue-cell populations

1 reference

12 December 2020

Effects of lattice anisotropy and temperature on domain growth in the two-dimensional Potts model

1 reference

12 December 2020

Computer simulation of the influence of cellular adhesion on the morphology of the interface between tissues of proliferating and quiescent cells

1 reference

12 December 2020

Adhesion between cells, diffusion of growth factors, and elasticity of the AER produce the paddle shape of the chick limb

1 reference

12 December 2020

Quantitative comparison between differential adhesion models and cell sorting in the presence and absence of fluctuations

1 reference

12 December 2020

Model of convergent extension in animal morphogenesis

1 reference

12 December 2020

A spatial model of germinal center reactions: cellular adhesion based sorting of B cells results in efficient affinity maturation

1 reference

12 December 2020

Single cell motion in aggregates of embryonic cells

1 reference

12 December 2020

Simulation of the differential adhesion driven rearrangement of biological cells

1 reference

12 December 2020

Simulating convergent extension by way of anisotropic differential adhesion

1 reference

12 December 2020