Works (74)
Updated: April 4th, 2024 15:07
2024 journal article
Flexural rigidity of pressurized model notochords in regular packing patterns
Cells & Development.
TL;DR:
The eccentric staircase pattern of cell packing has more than double the flexural rigidity of the radially symmetric bamboo pattern and is found to be more than twice as stiff in lateral bending than in dorsoventral bending, suggesting a mechanical advantage to the eccentric WT staircase patterns of the embryonic notochord.
(via Semantic Scholar)
Source: ORCID
Added: January 28, 2024
2024 journal article
Morphoelastic models discriminate between different mechanisms of left-right asymmetric stomach morphogenesis
CELLS & DEVELOPMENT, 177.
author keywords: Stomach morphogenesis; Morphoelasticity; Modeling; left/right asymmetry
TL;DR:
A continuum model of asymmetric stomach morphogenesis is developed using a morphoelastic framework and reveals that, of the various differential growth mechanisms tested, only one category is consistent with the leftward stomach curvature observed in wild-type embryos.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
10. Reduced Inequalities
(OpenAlex)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: January 28, 2024
2023 journal article
Physical models of notochord cell packing reveal how tension ratios determine morphometry
CELLS & DEVELOPMENT, 173.
author keywords: Notochord; Foams; Biomechanics; Cell packing; Sheath tension; Modeling
MeSH headings : Notochord / physiology; Body Weights and Measures
TL;DR:
Observations on the relationship between mechanics, geometry, and pattern provide a framework for further work which may provide insight into the roles of mechanosensing and pressure-volume regulation in the notochord.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: February 27, 2023
2021 journal article
Bubble packing, eccentricity, and notochord development
CELLS & DEVELOPMENT, 169.
author keywords: Notochord; Foam; Biomechanics; Packing pattern; Tissue mechanics
MeSH headings : Embryonic Development; Notochord
TL;DR:
The eccentricity of staircase patterns in flexible and semi-flexible tubes is found to be dependent on the tension ratio Γ, increasing as sheath tension decreases relative to interior cell tension.
(via Semantic Scholar)
open access via doi.org (publisher)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: July 18, 2022
2019 journal article
Does viral load alter behavior of the bee parasite Varroa destructor?
PLOS ONE, 14(6).
Ed(s): O. Rueppell
MeSH headings : Animals; Arachnid Vectors / virology; Bees / parasitology; Behavior, Animal; Host-Pathogen Interactions; RNA Viruses / isolation & purification; Real-Time Polymerase Chain Reaction; Varroidae / virology; Viral Load
TL;DR:
Statistically significant models reveal that colony, DWV, and SBV all might play a role in mite behavior, suggesting that the varroa-virus interaction needs to be an integral part of future studies on honey bee pathogens.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
15. Life on Land
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: July 1, 2019
2018 journal article
Tissue geometry may govern lung branching mode selection
JOURNAL OF THEORETICAL BIOLOGY, 442, 22–30.
MeSH headings : Animals; Cell Proliferation; Fibroblast Growth Factor 10 / metabolism; Humans; Lung / anatomy & histology; Lung / embryology; Lung / metabolism; Mesoderm / cytology; Mesoderm / embryology; Mesoderm / metabolism; Mice; Models, Anatomic; Morphogenesis
TL;DR:
A computational model of the epithelial lung bud and its surrounding mesenchyme is developed and it is found that a single simple mechanism is theoretically capable of directing an epithelial tubule to elongate, bend, flatten, or bifurcate, depending solely on geometric ratios of the tissues in the vicinity of a growing tubule tip.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2018 journal article
Tissue self-organization underlies morphogenesis of the notochord
author keywords: zebrafish; notochord; vacuolated cells; packing; self-organization
MeSH headings : Animals; Cell Count; Embryonic Development; Models, Biological; Morphogenesis; Notochord / embryology; Zebrafish / embryology
TL;DR:
It is concluded that self-organization underlies morphogenesis of the vertebrate notochord, a conserved axial structure that in vertebrates serves as a hydrostatic scaffold for embryonic axis elongation and, later on, for proper spine assembly.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: October 16, 2018
2017 journal article
Automated assay and differential model of western honey bee (Apis mellifera) autogrooming using digital image processing
COMPUTERS AND ELECTRONICS IN AGRICULTURE, 135, 338–344.
author keywords: Grooming behavior; Honey bees; Social insects; Image processing
TL;DR:
A novel, automated honey bee grooming assay was developed and tested to expedite data collection of grooming behavior by testing different honey bee genotypes (stocks), and bees from the different commercial stocks were not significantly different in their grooming rates.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2016 article
A note on how to develop interdisciplinary collaborations between experimentalists and theoreticians
Madzvamuse, A., & Lubkin, S. R. (2016, October 6). INTERFACE FOCUS, Vol. 6.
Contributors: A. Madzvamuse * & n
author keywords: experimental biology; theoretical biology; biophysics; cell biology
TL;DR:
This special issue is inspired by and based on the six-month research programme held at the Isaac Newton Institute for Mathematical Sciences, Cambridge, UK between 13 July and 18 December 2015 entitled ‘Coupling geometric partial differential equations with physics for cell morphology, motility and pattern formation’.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2016 journal article
Quantifying cellular and subcellular stretches in embryonic lung epithelia under peristalsis: where to look for mechanosensing
INTERFACE FOCUS, 6(5).
Contributors: K. Bokka n, E. Jesudason *, D. Warburton & n
author keywords: lung; airway; peristalsis; deformation; stenosis; morphogenesis
TL;DR:
This work geometrically analyses cell shapes in an epithelial tissue, and individual cell deformations resulting from peristaltic waves that completely occlude the airway, and gives a quantitative estimate of the relationship between length of occluded airway and the resulting tissue stretch in the distal tip.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2015 article
Diffusion coefficients (mum2/s) of various molecules in various fluids.
Figshare.
Source: ORCID
Added: August 23, 2021
2015 journal article
Morphogenetic Implications of Peristalsis-Driven Fluid Flow in the Embryonic Lung
Plos One, 10(7).
Contributors: K. Bokka n, E. Jesudason *, O. Lozoya *, F. Guilak *, D. Warburton * & n
MeSH headings : Animals; Embryo, Mammalian / embryology; Humans; Lung / embryology; Models, Biological; Organogenesis / physiology
TL;DR:
The first measurements of the viscosity of embryonic lung lumen fluid are reported, which indicate that if the airway is closed, fluid transport is minimal; by contrast, if the trachea is open, shear rates can be very high, particularly at the stenosis.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: ORCID
Added: August 23, 2021
2015 article
Morphogenetic Implications of Peristalsis-Driven Fluid Flow in the Embryonic Lung
Figshare. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=DRCI_CEL&KeyUT=DRCI:DATA2016074008585305&KeyUID=DRCI:DATA2016074008585305
Source: ORCID
Added: August 23, 2021
2015 journal article
Morphogenetic implications of peristaltic fluid-tissue dynamics in the embryonic lung
JOURNAL OF THEORETICAL BIOLOGY, 382, 378–385.
Contributors: K. Bokka n, E. Jesudason *, D. Warburton & n
author keywords: Airway; Peristalsis; Fluid-structure interaction; Pressure; Morphogenesis
MeSH headings : Animals; Computer Simulation; Epithelium / physiology; Hydrodynamics; Lung / embryology; Lung / physiology; Models, Biological; Morphogenesis; Peristalsis / physiology; Time Factors
TL;DR:
A model of the fluid-structure interactions between embryonic tissues and lumen fluid resulting from peristaltic waves that partially occlude the airway finds that if theAirway is closed, deformations are synchronized; by contrast, if the trachea is open, maximal occlusion precedes maximal pressure.
(via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2015 article
Parameters and variables used in estimates and computational model.
Figshare.
Source: ORCID
Added: August 23, 2021
2015 journal article
Quantifying stretch and secretion in the embryonic lung: Implications for morphogenesis
MECHANISMS OF DEVELOPMENT, 138, 356–363.
Contributors: U. George n, K. Bokka n, D. Warburton & n
author keywords: Morphogenesis; Lung; Mechanics; Transport; Secretion; Mechanobiology
MeSH headings : Animals; Biomechanical Phenomena; Hydrodynamics; Imaging, Three-Dimensional; Lung / embryology; Lung / metabolism; Lung / physiology; Mice; Models, Biological; Morphogenesis / physiology; Rheology; Trachea / embryology; Trachea / physiology
TL;DR:
The results are consistent with the hypothesis that tracheal occlusion blocks outflow of secretions, leading to a higher number of high-flux locations at branching tips, in turn lead to a large increase in number of branching locations.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2015 article
Source: ORCID
Added: August 23, 2021
2015 article
Source: ORCID
Added: August 23, 2021
2015 article
Source: ORCID
Added: August 23, 2021
2015 article
Source: ORCID
Added: August 23, 2021
2015 article
Source: ORCID
Added: August 23, 2021
2014 journal article
A Robin-Robin Domain Decomposition Method for a Stokes-Darcy Structure Interaction with a Locally Modified Mesh
Numerical Mathematics-Theory Methods and Applications, 7(4), 435–446.
author keywords: Stokes-Darcy fluid structure interactions; Robin-Robin domain decomposition method; body fitted mesh; locally modified mesh; BJS interface condition
TL;DR:
A new numerical method based on locally modified Cartesian meshes is proposed for solving a coupled system of a fluid flow and a porous media flow using a Robin-Robin domain decomposition method with a Cartesian mesh with local modifications near the interface.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
16. Peace, Justice and Strong Institutions
(OpenAlex)
Sources: ORCID, NC State University Libraries, NC State University Libraries
Added: August 6, 2018
2012 journal article
AN AUGMENTED IMMERSED INTERFACE METHOD FOR MOVING STRUCTURES WITH MASS
DISCRETE AND CONTINUOUS DYNAMICAL SYSTEMS-SERIES B, 17(4), 1175–1184.
Contributors: J. Ho, Z. Li* & *
author keywords: Immersed interface method; augmented method; projection method; Navier-Stokes; moving interface; implicit scheme; fluid-structure
TL;DR:
An augmented immersed interface method for simulating the dynamics of a deformable structure with mass in an incompressible fluid and shows that the fluid-structure system has bi-stability: a stationary state for a smaller Reynolds number and an oscillatoryState for a larger Reynolds number.
(via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2012 journal article
Embryonic Airway Peristalsis: the Mechanical Framework.
Molecular Biology of the Cell, 23. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000209348605105&KeyUID=WOS:000209348605105
Source: ORCID
Added: August 23, 2021
2011 journal article
Mechanical Control of Epithelial Growth: Distinct Morphogenetic Regimes
Biophysical Journal, 100(3), 444a.
TL;DR:
A model of transport and growth in epithelio-mesenchymal interactions provides a theoretical basis for explaining epithelial growth arrest despite proteolysis of surrounding tissue, and gives a quantitative framework for the design and interpretation of experiments.
(via Semantic Scholar)
Sources: Crossref, ORCID
Added: August 28, 2020
2011 journal article
Mechanical control of spheroid growth: Distinct morphogenetic regimes
JOURNAL OF BIOMECHANICS, 45(2), 319–325.
Contributors: O. Lozoya n & n
author keywords: Mechanics; Growth factor; Protease; Stem cell niche; Embryoid body; Swelling
MeSH headings : Animals; Epithelial-Mesenchymal Transition / physiology; Humans; Models, Biological; Spheroids, Cellular / physiology
TL;DR:
A model of transport and growth in epithelio-mesenchymal interactions provides a theoretical basis for explaining observations of growth arrest despite proteolysis of surrounding tissue, and gives a quantitative framework for the design and interpretation of experiments involving spheroids, and tissues which are locally equivalent to spheroid.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2011 journal article
Regulation of hepatic stem/progenitor phenotype by microenvironment stiffness in hydrogel models of the human liver stem cell niche
BIOMATERIALS, 32(30), 7389–7402.
Contributors: O. Lozoya n, E. Wauthier n, R. Turner n, C. Barbier n, G. Prestwich*, F. Guilak *, R. Superfine, n , L. Reid n
author keywords: Maturational lineages; Human hepatic stem cells; Human hepatoblasts; Hyaluronans; Microenvironment mechanical properties; Differentiation
MeSH headings : Cell Differentiation; Cell Survival; Cells, Cultured; Diffusion; Elasticity; Gene Expression; Humans; Hyaluronic Acid / chemistry; Hyaluronic Acid / metabolism; Hydrogels / chemistry; Hydrogels / metabolism; Liver / cytology; Phenotype; Stem Cell Niche; Stem Cells / cytology; Stem Cells / metabolism
TL;DR:
This study shows that the mechanical properties of the microenvironment can regulate differentiation in endodermal stem cell populations.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2010 article
LUNG ORGANOGENESIS
(P. Koopman, Ed.). ORGANOGENESIS IN DEVELOPMENT, Vol. 90, pp. 73–158.
Contributors: D. Warburton*, A. El-Hashash*, G. Carraro *, C. Tiozzo *, F. Sala *, O. Rogers*, S. De Langhe *, P. Kemp *
Ed(s): P. Koopman
MeSH headings : Animals; Biomechanical Phenomena; Cell Proliferation; Epithelial Cells / cytology; Epithelial Cells / physiology; Homeodomain Proteins / genetics; Homeodomain Proteins / metabolism; Humans; Intercellular Signaling Peptides and Proteins / genetics; Intercellular Signaling Peptides and Proteins / metabolism; Lung / anatomy & histology; Lung / embryology; Lung / growth & development; MicroRNAs / genetics; MicroRNAs / metabolism; Organogenesis / physiology; Signal Transduction / physiology; Stem Cells / cytology; Stem Cells / physiology; Transcription Factors / genetics; Transcription Factors / metabolism
TL;DR:
It is proposed that looking at the lung in general and branching in particular in terms of clocks may yield unexpected benefits, and efforts to parse the finer detail of lung bud signaling may need to be combined with broader consideration of overarching mechanisms that may be therapeutically easier to target.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2009 journal article
Analysis and Computation for a Fluid Mixture Model
Communications in Computational Physics, 5(2-4), 620–634. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000263563600023&KeyUID=WOS:000263563600023
Source: ORCID
Added: August 23, 2021
2009 conference paper
Analysis and computation for a fluid mixture model
Communications in Computational Physics, 5(2-4), 620–634.
Source: NC State University Libraries
Added: August 6, 2018
2008 journal article
Convergent extension by intercalation without mediolaterally fixed cell motion
JOURNAL OF THEORETICAL BIOLOGY, 256(2), 180–186.
author keywords: Convergent extension; Morphogenesis; Intercalation; Stochastic model
MeSH headings : Animals; Cell Adhesion / physiology; Cell Movement / physiology; Cell Shape / physiology; Models, Biological; Morphogenesis / physiology; Stochastic Processes
TL;DR:
A stochastic model of convergent extension of tissue that extends and converges to a stacked arrangement of elongated cells one cell wide, an arrangement which is seen in ascidian notochords, but which has not been observed in other models.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2007 review
Branched organs: Mechanics of morphogenesis by multiple mechanisms
(S. Schnell, P. K. Maini, S. A. Newman, & T. J. Newman, Eds.) [Review of ]. MULTISCALE MODELING OF DEVELOPMENTAL SYSTEMS, 81, 249-+.
Ed(s): S. Schnell, P. Maini, S. Newman & T. Newman
MeSH headings : Animals; Apoptosis; Basement Membrane / cytology; Biomechanical Phenomena; Cell Adhesion; Cell Movement; Cell Proliferation; Cell Shape; Cell Size; Extracellular Matrix / physiology; Mesoderm / cytology; Models, Biological; Morphogenesis; Viscosity
TL;DR:
Several models of the mechanics of cleft formation are developed and the implications of several candidate mechanisms are discussed and what has been found in models and in experiments are reviewed.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2007 journal article
Mechanics of mesenchymal contribution to clefting force in branching morphogenesis
BIOMECHANICS AND MODELING IN MECHANOBIOLOGY, 7(5), 417–426.
MeSH headings : Animals; Computer Simulation; Embryo, Mammalian; Epithelium / physiology; Extracellular Matrix / physiology; Kinetics; Mesoderm / cytology; Mesoderm / physiology; Models, Biological; Morphogenesis / physiology; Stress, Mechanical; Viscosity
TL;DR:
A 3D model of the mechanics of clefting is developed, focusing in this paper solely on the potential role of mesenchyme-generated traction forces, and finds that mesenchymal traction forces are sufficient to generate a cleft of the correct size and morphology, in the correct time frame.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2006 journal article
An augmented approach for the pressure boundary condition in a Stokes flow
Communications in Computational Physics, 1(5), 874–885. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000241516600006&KeyUID=WOS:000241516600006
Sources: NC State University Libraries, ORCID
Added: August 6, 2018
2006 book
Developmental biology: Branching morphogenesis
In Complex Systems Science in BioMedicine (pp. 357–374). http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=BCI&KeyUT=BCI:BCI200700025770&KeyUID=BCI:BCI200700025770
Source: ORCID
Added: August 23, 2021
2006 journal article
Optimizing detection of tissue anisotropy by fluorescence recovery after photobleaching
BULLETIN OF MATHEMATICAL BIOLOGY, 68(8), 1873–1891.
Contributors: n & X. Wan n
author keywords: hindered diffusion; anisotropic diffusion; polydisperse; cartilage; fluorescence microscopy
MeSH headings : Anisotropy; Cartilage / chemistry; Cartilage / metabolism; Collagen / chemistry; Computer Simulation; Fluorescence Recovery After Photobleaching / methods; Microscopy, Fluorescence; Models, Biological
TL;DR:
It is concluded that FRAP can be used to detect tissue anisotropy when the tracer molecule is sufficiently large relative to the fiber diameter, volume fraction, and degree of polydispersivity, and when the anisOTropy is sufficiently pronounced.
(via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2006 journal article
Quantifying the significance of phage attack on starter cultures: a mechanistic model for population dynamics of phage and their hosts isolated from fermenting sauerkraut
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 72(6), 3908–3915.
Contributors: P. Mudgal n, F. Breidt n, n & K. Sandeep n
MeSH headings : Bacteria / growth & development; Bacteria / virology; Bacteriophages / growth & development; Bacteriophages / isolation & purification; Brassica / microbiology; Food Handling / methods; Leuconostoc / growth & development; Leuconostoc / isolation & purification; Leuconostoc / virology; Models, Theoretical
TL;DR:
It was suggested that the kinetic parameters of phage-host interaction, especially the adsorption rate, vary with the initial phage and host densities and with time, and the effects of heterogeneity and other environmental factors should be considered to make the model applicable to commercial fermentations.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2006 journal article
Semi-mechanistic partial buffer approach to modeling pH, the buffer properties, and the distribution of ionic species in complex solutions
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY, 54(16), 6021–6029.
Contributors: D. Dougherty n, E. Neta n, R. McFeeters n, n & F. Breidt n
author keywords: buffer capacity; Cucumis sativus; vegetable; titration; pH prediction; Davies equation
MeSH headings : Algorithms; Buffers; Cucumis sativus / chemistry; Hydrogen-Ion Concentration; Ions / chemistry; Models, Chemical; Osmolar Concentration; Sensitivity and Specificity; Solutions / chemistry
TL;DR:
A flexible, semi-mechanistic, partial buffering (SMPB) approach is presented that uses local polynomial regression to model the buffering influence of complex or undefined components in a solution, while identified components of known concentration are modeled using expressions based on extensions of the standard acid-base theory.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2003 journal article
Enhanced growth of tumors in SPARC null mice is associated with changes the ECM
JOURNAL OF CLINICAL INVESTIGATION, 111(4), 487–495.
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018
2003 journal article
Enhanced growth of tumors in SPARC null mice is associated with changes the ECM
Journal of Clinical Investigation, 111(4), 487–495.
Contributors: R. Brekken *, P. Puolakkainen *, D. Graves*, G. Workman*, n & E. Sage*
MeSH headings : Animals; Apoptosis; Base Sequence; Cell Division; DNA / genetics; Extracellular Matrix / metabolism; Extracellular Matrix / pathology; Gene Expression; Macrophages / pathology; Macrophages / physiology; Mice; Mice, Inbred C57BL; Mice, Knockout; Neoplasms, Experimental / genetics; Neoplasms, Experimental / metabolism; Neoplasms, Experimental / pathology; Osteonectin / deficiency; Osteonectin / genetics; Osteonectin / physiology; RNA, Messenger / genetics; RNA, Messenger / metabolism; Tumor Cells, Cultured
TL;DR:
It is reported that implanted tumors grew more rapidly in mice lacking SPARC and the data indicate that host-derived SPARC is important for the appropriate organization of the ECM in response to implanted tumors and highlight the importance of theECM in regulating tumor growth.
(via Semantic Scholar)
Source: ORCID
Added: August 23, 2021
2002 journal article
Energy-based dynamic model for variable temperature batch fermentation by Lactococcus lactis
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 68(5), 2468–2478.
Contributors: D. Dougherty n, F. Breidt n, R. McFeeters n & n
MeSH headings : Calibration; Energy Metabolism; Fermentation; Lactococcus lactis / metabolism; Models, Biological; Reproducibility of Results; Temperature
TL;DR:
A dynamic energy budget approach is used to model the dependence of growth on present as well as past environmental conditions and suggests plausible and testable mechanistic assumptions about the interplay between cellular energetics and the modes of inhibition by temperature and end product accumulation.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2002 journal article
Force and deformation on branching rudiments: cleaving between hypotheses
BIOMECHANICS AND MODELING IN MECHANOBIOLOGY, 1(1), 5–16.
Contributors: * & Z. Li*
MeSH headings : Animals; Cell Size / physiology; Computer Simulation; Elasticity; Epithelium / anatomy & histology; Epithelium / embryology; Epithelium / growth & development; Humans; Mechanotransduction, Cellular / physiology; Mesoderm / cytology; Mesoderm / physiology; Models, Biological; Morphogenesis / physiology; Rheology / methods; Stress, Mechanical; Surface Properties; Viscosity
TL;DR:
It is proposed that a complete understanding of branching morphogenesis requires measurements of the mechanical aspects, and it is found that the surface tension, clefting force, and viscosity ratio of the two tissues have significant effects on the branching.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2002 journal article
Mechanistic modeling of pH and buffer capacity during the growth of Listeria monocytogenes and Lactococcus lactis in vegetable broth medium
Abstracts of the General Meeting of the American Society for Microbiology, 102, 263. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=BCI&KeyUT=BCI:BCI200200597258&KeyUID=BCI:BCI200200597258
Source: ORCID
Added: August 23, 2021
2002 journal article
Multiphase mechanics of capsule formation in tumors
JOURNAL OF BIOMECHANICAL ENGINEERING-TRANSACTIONS OF THE ASME, 124(2), 237–243.
Contributors: n & T. Jackson *
MeSH headings : Cell Count; Cell Size; Computer Simulation; Disease Progression; Elasticity; Extracellular Matrix; Fibrosis; Intercellular Junctions; Models, Biological; Neoplasms / pathology; Neoplasms / physiopathology; Osmotic Pressure; Rheology; Sensitivity and Specificity; Stress, Mechanical; Viscosity; Water / physiology
TL;DR:
It is shown that the presence of contractility in the surrounding tissue, corresponding to a host defense, can make an existing capsule denser and constrain the tumor better, but cannot be responsible for the observed pressure gradients in encapsulated tumors.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2001 journal article
An energy-based approach for modeling the batch culture of Lactococcus lactis in vegetable broth
Abstracts of the General Meeting of the American Society for Microbiology, 101, 434–435. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=BCI&KeyUT=BCI:BCI200200212002&KeyUID=BCI:BCI200200212002
Source: ORCID
Added: August 23, 2021
2001 journal article
Biomathematics
Encyclopedia of Mathematics Education, 77–78.
Ed(s): . L. S. Grinstein & S. Lipsey
Source: NC State University Libraries
Added: August 6, 2018
2001 journal article
Epithelial branching
Sources: NC State University Libraries, NC State University Libraries
Added: August 6, 2018
2001 journal article
Numerical analysis of interfacial two-dimensional Stokes flow with discontinuous viscosity and variable surface tension
INTERNATIONAL JOURNAL FOR NUMERICAL METHODS IN FLUIDS, 37(5), 525–540.
Contributors: Z. Li n & n
author keywords: discontinuous and non-smooth solution; immersed interface method; interface; jump condition; Stokes equation; variable surface tension
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
2000 journal article
Quantifying Vasculature: New Measures Applied to Arterial Trees in the Quail Chorioallantoic Membrane
Journal of Theoretical Medicine, 6(3), 173–180.
TL;DR:
Two additional classes of measures based on erosions and dilations of the image are introduced, one inversely highly correlated with fractal dimension of the skeletonized image, but has a more direct biological interpretation.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land
(OpenAlex)
Sources: Crossref, NC State University Libraries
Added: August 28, 2020
1999 journal article
A minimal mechanism for bacterial pattern formation
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 266(1416), 299–304.
Contributors: R. Tyson *, n & J. Murray
author keywords: chemotaxis; bacterial patterns; mathematical modelling; bacterial aggregates; spots; stripes
MeSH headings : Bacterial Adhesion / physiology; Chemotaxis / physiology; Citric Acid Cycle; Culture Media; Escherichia coli / cytology; Escherichia coli / physiology; Models, Biological; Salmonella typhimurium / cytology; Salmonella typhimurium / physiology
TL;DR:
A mathematical model is presented which captures all three of the pattern forming processes experimentally observed in both E. coli and S. typhimurium, using a minimum of assumptions.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018
1999 journal article
Mathematical and experimental analysis of localization of anti-tumour antibody-enzyme conjugates
BRITISH JOURNAL OF CANCER, 80(11), 1747–1753.
Contributors: T. Jackson *, * , N. Siemers *, D. Kerr*, P. Senter * & J. Murray*
MeSH headings : Animals; Antibodies, Monoclonal / pharmacokinetics; Female; Humans; Immunoglobulin G / metabolism; Immunoglobulin G / therapeutic use; Kinetics; Melanoma / drug therapy; Melanoma / immunology; Melanoma / metabolism; Mice; Mice, Nude; Models, Biological; Models, Statistical; Neoplasms / drug therapy; Neoplasms / immunology; Neoplasms / metabolism; Recombinant Fusion Proteins / metabolism; Recombinant Fusion Proteins / pharmacokinetics; Recombinant Fusion Proteins / therapeutic use; Tissue Distribution; Transplantation, Heterologous; Tumor Cells, Cultured; beta-Lactamases / metabolism; beta-Lactamases / therapeutic use
TL;DR:
The model predicts that dosing strategy has little effect on the amount of conjugate that localizes in the tumour, and is used to examine various dosing strategies in an attempt to determine which regimen would provide the best biodistribution results.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
1999 journal article
Model and analysis of chemotactic bacterial patterns in a liquid medium
JOURNAL OF MATHEMATICAL BIOLOGY, 38(4), 359–375.
Contributors: R. Tyson *, n & J. Murray*
author keywords: chemotaxis; partial differential equations; bacteria; mathematical modeling; pattern formation
MeSH headings : Bacterial Physiological Phenomena; Chemotaxis / physiology; Culture Media; Escherichia coli / physiology; Linear Models; Mathematics; Models, Biological; Salmonella typhimurium / physiology
TL;DR:
A simple and intuitively revealing analysis of the patterns generated by the modeled dynamics of the bacteria, nutrient and chemoattractant give rise to a nonlinear partial differential equation system.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
1999 journal article
Theoretical analysis of conjugate localization in two-step cancer chemotherapy
JOURNAL OF MATHEMATICAL BIOLOGY, 39(4), 353–376.
Contributors: T. Jackson *, n & J. Murray*
author keywords: mathematical modeling; cancer chemotherapy; antibody-enzyme conjugate
MeSH headings : Animals; Antibodies, Monoclonal / administration & dosage; Antibodies, Monoclonal / pharmacokinetics; Antibodies, Monoclonal / therapeutic use; Antineoplastic Agents / administration & dosage; Antineoplastic Agents / pharmacokinetics; Antineoplastic Agents / therapeutic use; Computer Simulation; Humans; Melanoma / drug therapy; Melanoma / metabolism; Mice; Mice, Nude; Models, Biological; Numerical Analysis, Computer-Assisted; Prodrugs / administration & dosage; Prodrugs / pharmacokinetics; Prodrugs / therapeutic use; Recombinant Fusion Proteins / administration & dosage; Recombinant Fusion Proteins / pharmacokinetics; Recombinant Fusion Proteins / therapeutic use; Skin Neoplasms / drug therapy; Skin Neoplasms / metabolism; Transplantation, Heterologous; beta-Lactamases / administration & dosage; beta-Lactamases / pharmacokinetics; beta-Lactamases / therapeutic use
TL;DR:
A mathematical model based on the biology of human 3677 melanoma xenografts in nude mice is presented, analyzed, and numerically simulated to study the biodistribution, pharmacokinetics, and intratumoral localization properties of L49-β-lactamase fusion proteins in solid tumor masses.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
1998 book
A mechanical theory of in vitro vascular network formation
In Cardiovascular Molecular Morphogenesis Series; Vascular morphogenesis: In vivo, in vitro, in mente (pp. 173–188). http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=BIOSIS&KeyUT=BIOSIS:PREV199900155952&KeyUID=BIOSIS:PREV199900155952
Source: ORCID
Added: August 23, 2021
1998 journal article
Spatial pattern formation in biology: I. Dermal wound healing. II. Bacterial patterns
JOURNAL OF THE FRANKLIN INSTITUTE-ENGINEERING AND APPLIED MATHEMATICS, 335B(2), 303–332.
Contributors: J. Murray*, J. Cook *, R. Tyson * & *
TL;DR:
A model is described for the complex patterns formed by bacterial colonies, specifically Escherichia coli, and derive and analyse a model firmly based on experimental data, and the results from the model compare well with experiment.
(via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
1997 chapter
Dynamics within tissues stresses, growth, and morphogenesis
In A. D. W. Alt & G. Dunn (Eds.), Dynamics of cell and tissue motion (pp. 211–284). Basel: Birkhauser Verlag.
Ed(s): A. W. Alt & G. Dunn
Source: NC State University Libraries
Added: August 6, 2018
1997 article
Mechanisms for Branching Morphogenesis of the Lung
(A. D. W. Alt & G. Dunn, Eds.). Dynamics of Cell and Tissue Motion, pp. 229–234.
Ed(s): A. Alt & G. Dunn
TL;DR:
The human lung is a dichotomously branched, hollow structure, which forms in a similar manner to other glandular organs such as the kidney, pancreas, mammary and salivary glands.
(via Semantic Scholar)
Sources: NC State University Libraries, ORCID, NC State University Libraries
Added: August 6, 2018
1997 book
Mechanisms for branching morphogenesis of the lung
In W. Alt, A. Deutsch, & G. Dunn (Eds.), Dynamics of Cell and Tissue Motion (pp. 229–234). http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000071666700027&KeyUID=WOS:000071666700027
Ed(s): W. Alt, A. Deutsch & G. Dunn
Source: ORCID
Added: August 23, 2021
1997 journal article
On pattern formation in reptilian dentition
JOURNAL OF THEORETICAL BIOLOGY, 186(2), 145–157.
TL;DR:
Sequences of tooth initiation are observed robustly in the model which have not hitherto been documented in vivo, suggesting the as yet undocumented occurrence of such a sequence in a living or extinct reptile.
(via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018
1997 journal article
Use of an epidemiologic model to evaluate feline leukemia virus control measures
Feline Practice, 25(4), 6–11. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:A1997XU72500002&KeyUID=WOS:A1997XU72500002
Sources: NC State University Libraries, ORCID
Added: August 6, 2018
1996 journal article
A mechanical model for the formation of vascular networks in vitro
Acta Biotheoretica, 44(3-4), 271–282. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:A1996VW59000008&KeyUID=WOS:A1996VW59000008
Source: ORCID
Added: August 23, 2021
1996 chapter
A mechanical theory of in vitro vascular network formation
In V. M. C. D. Little & E. H. Sage (Eds.), Vascular morphogenesis: in vivo, in vitro, in mente (pp. 173–188).
Ed(s): V. C. D. Little & . E. H. Sage
TL;DR:
There has, in the past few years, been an increasing recognition among experimentalist and theoreticians that dramatic progress in biology could come about through a genuine interdisciplinary approach involving experimentalists and theoretician.
(via Semantic Scholar)
Source: NC State University Libraries
Added: August 6, 2018
1996 journal article
Evaluation of feline leukemia virus control measures
Journal of Theoretical Biology, 178(1), 53–60.
Contributors: * , J. Romatowski*, M. Zhu*, P. Kulesa * & K. White *
MeSH headings : Animals; Cats; Disease Susceptibility; Evaluation Studies as Topic; Immunization / veterinary; Leukemia, Feline / epidemiology; Leukemia, Feline / prevention & control; Models, Biological; Population Density; Prevalence; Social Environment
TL;DR:
It is concluded that the current estimated effective feline leukemia virus immunization rate of 11-19% of the general population is inadequate to provide herd immunity in the subpopulation of cats which are genuinely at risk of infection.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(OpenAlex)
Source: ORCID
Added: August 23, 2021
1996 journal article
Modelling the spatial patterning of teeth primordia in the alligator
Acta Biotheoretica, 44(2), 153–164.
Contributors: P. Kulesa *, G. Cruywagen, * , M. Ferguson * & J. Murray*
TL;DR:
A dynamic patterning mechanism is developed, which crucially includes domain growth, that can reproduce the spatial pattern development of the first seven teeth primordia in each half jaw of A. mississippiensis.
(via Semantic Scholar)
Source: ORCID
Added: August 23, 2021
1996 journal article
On a model mechanism for the spatial patterning of teeth primordia in alligator
Journal of Theoretical Biology, 180(4), 287–296.
Contributors: P. Kulesa *, G. Cruywagen, * , P. Maini, J. Sneyd *, M. Ferguson *, J. Murray*
TL;DR:
Based on biological data, a reaction-diffusion mechanism is developed which can reproduce the spatial pattern development of the first seven teeth primordia in the lower half jaw of the alligator, Alligator mississippiensis.
(via Semantic Scholar)
Source: ORCID
Added: August 23, 2021
1996 journal article
Simple versus sophisticated models of breath alcohol exhalation profiles
Alcohol and Alcoholism, 31(1), 61–67. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:A1996UF38500008&KeyUID=WOS:A1996UF38500008
Source: ORCID
Added: August 23, 2021
1995 journal article
A MECHANISM FOR EARLY BRANCHING IN LUNG MORPHOGENESIS
Journal of Mathematical Biology, 34(1), 77–94.
author keywords: LUNG; PATTERN FORMATION; MORPHOGENESIS; FETAL DEVELOPMENT
MeSH headings : Animals; Embryo, Mammalian; Embryonic and Fetal Development; Humans; Lung / anatomy & histology; Lung / embryology; Mathematics; Models, Biological; Morphogenesis
TL;DR:
It is suggested that the repeated branching of the early embryonic lung can be understood as the natural physical consequence of the interactions of two or more plastic substances with surface tension between them.
(via Semantic Scholar)
Source: ORCID
Added: August 23, 2021
1995 book
A pair formation approach to modeling inheritance of social traits
In V. Lakshmikantham (Ed.), World Congress of Nonlinear Analysis '92, Vols 1-4 (pp. 3227–3234). http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:A1995BF46J00295&KeyUID=WOS:A1995BF46J00295
Ed(s): V. Lakshmikantham
Source: ORCID
Added: August 23, 2021
1995 journal article
Modelling the spatial patterning of the teeth primordia in the lower jaw of Alligator mississippiensis
Journal of Biological Systems, Vol 3, Nos 1-4, 1995: Special Issue: 2nd Ecmbm-Lyon, Pts 1-4, 975–985. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:A1995BF06V00086&KeyUID=WOS:A1995BF06V00086
Source: ORCID
Added: August 23, 2021
1994 journal article
OSCILLATORY REACTION-DIFFUSION EQUATIONS ON RINGS
Journal of Mathematical Biology, 32(6), 617–632.
Contributors: * & R. Rand *
author keywords: OSCILLATORS; BIFURCATIONS; REACTION-DIFFUSION EQUATIONS; SPATIAL HETEROGENEITY
Source: ORCID
Added: August 23, 2021
1994 journal article
UNIDIRECTIONAL WAVES ON RINGS - MODELS FOR CHIRAL PREFERENCE OF CIRCUMNUTATING PLANTS
Bulletin of Mathematical Biology, 56(5), 795–810.
TL;DR:
Wave phenomena on asymmetric but isotropic rings, and seek systems which will only support (stable) waves in one direction around the ring, and not in the other, indicate that chiral asymmetries of circumnutating plants cannot be explained by continuum oscillator phenomena, but can be explaining by general discrete oscillators, or excitable phenomena on the continuum.
(via Semantic Scholar)
Source: ORCID
Added: August 23, 2021
1992 journal article
A thin-shell model of the cornea and its application to corneal surgery.
Refractive &Amp; Corneal Surgery, 8(2), 183–186. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=MEDLINE&KeyUT=MEDLINE:1591214&KeyUID=MEDLINE:1591214
Source: ORCID
Added: August 23, 2021
1991 journal article
ANALYTICAL MODEL OF CORNEAL SURGERY
Journal of Biomechanical Engineering-Transactions of the Asme, 113(2), 239–241.
Contributors: R. Rand *, * & H. Howland*
MeSH headings : Cornea / pathology; Cornea / physiopathology; Elasticity; Humans; Intraocular Pressure / physiology; Keratotomy, Radial; Models, Biological
TL;DR:
A model of the human cornea is presented in order to study the changes in its shape resulting from surgical operations, and the effect of surgery on corneal flattening and the associated sensitivity to intraocular pressure changes is investigated.
(via Semantic Scholar)
Source: ORCID
Added: August 23, 2021
1990 journal article
ANALYTICAL MODEL OF CORNEAL SURGERY
Investigative Ophthalmology and Visual Science, 31(4 ABSTR. ISSUE), 481. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=BCI&KeyUT=BCI:BCI199039098517&KeyUID=BCI:BCI199039098517
Source: ORCID
Added: August 23, 2021
Employment
Updated: January 22nd, 2015 09:49
1997 - present
North Carolina State University Raleigh, NC, US
Education
Updated: January 22nd, 2015 09:48
1987 - 1992
Cornell University Ithaca, NY, US
PhD
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