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Research Output 1969 2019

2019
1 Citation (Scopus)

Eukaryotic cell dynamics from crawlers to swimmers

Othmer, H. G., Jan 1 2019, In : Wiley Interdisciplinary Reviews: Computational Molecular Science. 9, 1, e1376.

Research output: Contribution to journalReview article

Eukaryotic Cells
Biophysics
Cytoskeleton
Biochemistry
Cell

Synergistic effects of bortezomib-OV therapy and anti-invasive strategies in glioblastoma: A mathematical model

Kim, Y., Lee, J., Lee, D. & Othmer, H. G., Feb 1 2019, In : Cancers. 11, 2, 215.

Research output: Contribution to journalArticle

Open Access
Oncolytic Virotherapy
Glioblastoma
Theoretical Models
Tumor Microenvironment
Oncolytic Viruses
2018
1 Citation (Scopus)

A Model for the Hippo Pathway in the Drosophila Wing Disc

Gou, J., Lin, L. & Othmer, H. G., Aug 21 2018, In : Biophysical journal. 115, 4, p. 737-747 11 p.

Research output: Contribution to journalArticle

Drosophila
Cell Communication
Cell Polarity
Cadherins
Growth

Analysis of a model microswimmer with applications to blebbing cells and mini-robots

Wang, Q. & Othmer, H. G., Jun 1 2018, In : Journal of Mathematical Biology. 76, 7, p. 1699-1763 65 p.

Research output: Contribution to journalArticle

robots
Blister
Robot
Robots
Pectinidae
1 Citation (Scopus)

Getting in shape and swimming: the role of cortical forces and membrane heterogeneity in eukaryotic cells

Wu, H., de León, M. A. P. & Othmer, H. G., 2018, In : Journal of Mathematical Biology. 77, 3, p. 1-32 32 p.

Research output: Contribution to journalArticle

Open Access
Eukaryotic Cells
eukaryotic cells
Membrane
Membranes
Cell

Leveraging Compute Clusters for Large-Scale Parametric Screens of Reaction-Diffusion Systems

Karim, M. S., Othmer, H. G. & Umulis, D. M., Jun 6 2018, Proceedings - 26th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing, PDP 2018. Kotenko, I., Merelli, I. & Lio, P. (eds.). Institute of Electrical and Electronics Engineers Inc., p. 706-713 8 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Supercomputers
Screening
Systems Biology

Noise-induced mixing and multimodality in reaction networks

Plesa, T., Erban, R. A. D. E. K. & Othmer, H. G., Jan 1 2018, (Accepted/In press) In : European Journal of Applied Mathematics.

Research output: Contribution to journalArticle

Reaction Network
Multimodality
Probability Distribution
Genes
Probability distributions
2017
4 Citations (Scopus)
Photobleaching
Fluorescence Recovery After Photobleaching
Drosophilidae
Pattern Formation
Fluorescence
17 Citations (Scopus)

The Role of the Tumor Microenvironment in Glioblastoma: A Mathematical Model

Kim, Y., Jeon, H. & Othmer, H. G., Mar 1 2017, In : IEEE Transactions on Biomedical Engineering. 64, 3, p. 519-527 9 p., 7778236.

Research output: Contribution to journalArticle

Tumors
Mathematical models
Cells
Macrophages
Immune system
2016
8 Citations (Scopus)
Dictyostelium discoideum
Signal transduction
Dictyostelium
Signal Transduction
Symmetry Breaking
6 Citations (Scopus)

A multi-time-scale analysis of chemical reaction networks: II. Stochastic systems

Kan, X., Lee, C. H. & Othmer, H. G., Nov 1 2016, In : Journal of Mathematical Biology. 73, 5, p. 1081-1129 49 p.

Research output: Contribution to journalArticle

Chemical Reaction Networks
Stochastic systems
chemical reactions
Stochastic Systems
Chemical reactions
1 Citation (Scopus)

Cell-based, continuum and hybrid models of tissue dynamics

Othmer, H. G., Nov 1 2016, In : Lecture Notes in Mathematics. 2167

Research output: Contribution to journalArticle

Continuum Model
Hybrid Model
Cell
Metastasis
Signal Transduction
6 Citations (Scopus)

Computational analysis of amoeboid swimming at low Reynolds number

Wang, Q. & Othmer, H. G., Jun 1 2016, In : Journal of Mathematical Biology. 72, 7, p. 1893-1926 34 p.

Research output: Contribution to journalArticle

Computational Analysis
Low Reynolds number
Reynolds number
Dictyostelium discoideum
Dictyostelium
8 Citations (Scopus)

Progress and perspectives in signal transduction, actin dynamics, and movement at the cell and tissue level: Lessons from Dictyostelium

Bretschneider, T., Othmer, H. G. & Weijer, C. J., Oct 6 2016, In : Interface Focus. 6, 5

Research output: Contribution to journalReview article

Signal transduction
Dictyostelium
Machinery
Cell Movement
Actins
2015
17 Citations (Scopus)

A mathematical model of salt-sensitive hypertension: The neurogenic hypothesis

Averina, V. A., Othmer, H. G., Fink, G. D. & Osborn Jr, J. W., Jan 1 2015, In : Journal of Physiology. 593, 14, p. 3065-3075 11 p.

Research output: Contribution to journalReview article

Theoretical Models
Salts
Hypertension
Kidney
Arterial Pressure
4 Citations (Scopus)

Constant-complexity stochastic simulation algorithm with optimal binning

Sanft, K. R. & Othmer, H. G., Aug 21 2015, In : Journal of Chemical Physics. 143, 7, 074108.

Research output: Contribution to journalArticle

simulation
Computational complexity
Trajectories
trajectories
scaling
9 Citations (Scopus)

The Role of Mathematical Models in Understanding Pattern Formation in Developmental Biology

Umulis, D. M. & Othmer, H. G., May 30 2015, In : Bulletin of mathematical biology. 77, 5, p. 817-845 29 p.

Research output: Contribution to journalArticle

Developmental Biology
developmental biology
Mathematics
mathematics
Pattern Formation
2014
1 Citation (Scopus)

Editorial: Special Issue on Stochastic Modelling of Reaction-Diffusion Processes in Biology

Erban, R. & Othmer, H. G., Jan 1 2014, In : Bulletin of Mathematical Biology. 76, 4, p. 761-765 5 p.

Research output: Contribution to journalEditorial

Stochastic Processes
Biological Models
Stochastic Modeling
stochastic processes
Reaction-diffusion
13 Citations (Scopus)

Stochastic Analysis of Reaction-Diffusion Processes

Hu, J., Kang, H. W. & Othmer, H. G., Jan 1 2014, In : Bulletin of Mathematical Biology. 76, 4, p. 854-894 41 p.

Research output: Contribution to journalArticle

Stochastic Analysis
Reaction-diffusion
Diffusion Process
Chemical Phenomena
Biological Phenomena
2013
16 Citations (Scopus)

A Continuum Model of Actin Waves in Dictyostelium discoideum

Khamviwath, V., Hu, J. & Othmer, H. G., May 31 2013, In : PLoS One. 8, 5, e64272.

Research output: Contribution to journalArticle

Dictyostelium discoideum
Dictyostelium
actin
Actins
Network components
37 Citations (Scopus)

A Hybrid Model of Tumor-Stromal Interactions in Breast Cancer

Kim, Y. & Othmer, H. G., Aug 1 2013, In : Bulletin of Mathematical Biology. 75, 8, p. 1304-1350 47 p.

Research output: Contribution to journalArticle

Hybrid Model
Breast Cancer
tumor
breast neoplasms
Tumors
8 Citations (Scopus)
Signal transduction
bacteria
Signal Transduction
Bacteria
Control systems
47 Citations (Scopus)

Mechanisms of scaling in pattern formation

Umulis, D. M. & Othmer, H. G., Dec 15 2013, In : Development (Cambridge). 140, 24, p. 4830-4843 14 p.

Research output: Contribution to journalReview article

scaling
development level
Xenopus
Drosophila
gene expression

Reply from V. A. Averina, H. G. Othmer, G. D. Fink and J. W. Osborn

Averina, V. A., Othmer, H. G., Fink, G. D. & Osborn, J. W., Jun 1 2013, In : Journal of Physiology. 591, 11, p. 2965 1 p.

Research output: Contribution to journalLetter

Biological Models
Angiotensin II
Sodium
Hypertension
10 Citations (Scopus)

The mathematical analysis of biological aggregation and dispersal: Progress, problems and perspectives

Othmer, H. G. & Xue, C., Jan 1 2013, Dispersal, Individual Movement and Spatial Ecology: A Mathematical Perspective. Springer- Verlag, p. 79-127 49 p. (Lecture Notes in Mathematics; vol. 2071).

Research output: Chapter in Book/Report/Conference proceedingChapter

Mathematical Analysis
Aggregation
Pattern Formation
Model
Mathematical Model
2012
25 Citations (Scopus)

A new conceptual paradigm for the haemodynamics of salt-sensitive hypertension: A mathematical modelling approach

Averina, V. A., Othmer, H. G., Fink, G. D. & Osborn Jr, J. W., Dec 1 2012, In : Journal of Physiology. 590, 23, p. 5975-5992 18 p.

Research output: Contribution to journalArticle

Natriuresis
Salts
Hemodynamics
Hypertension
Arterial Pressure
19 Citations (Scopus)

A new method for choosing the computational cell in stochastic reaction-diffusion systems

Kang, H. W., Zheng, L. & Othmer, H. G., Jan 1 2012, In : Journal of Mathematical Biology. 65, 6-7, p. 1017-1099 83 p.

Research output: Contribution to journalArticle

Reaction-diffusion System
Cell Size
Stochastic Systems
Cell
Covariance matrix
11 Citations (Scopus)

A "Trimer of Dimers"-Based Model for the Chemotactic Signal Transduction Network in Bacterial Chemotaxis

Xin, X. & Othmer, H. G., Oct 1 2012, In : Bulletin of Mathematical Biology. 74, 10, p. 2339-2382 44 p.

Research output: Contribution to journalArticle

chemotaxis
Signal transduction
Signal Transduction
Chemotaxis
Dimer
3 Citations (Scopus)

Scale invariance of morphogen-mediated patterning by flux optimization

Umulis, D. M. & Othmer, H. G., Dec 1 2012, 2012 5th International Conference on Biomedical Engineering and Informatics, BMEI 2012. p. 1030-1034 5 p. 6513146. (2012 5th International Conference on Biomedical Engineering and Informatics, BMEI 2012).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Invariance
Tissue
Fluxes
Gene expression
Cell signaling
9 Citations (Scopus)

The effect of the signalling scheme on the robustness of pattern formation in development

Kang, H. W., Zheng, L. & Othmer, H. G., Aug 6 2012, In : Interface Focus. 2, 4, p. 465-486 22 p.

Research output: Contribution to journalArticle

Gene expression
Tissue
Gene Expression
6 Citations (Scopus)

The importance of geometry in mathematical models of developing systems

Umulis, D. M. & Othmer, H. G., Dec 1 2012, In : Current Opinion in Genetics and Development. 22, 6, p. 547-552 6 p.

Research output: Contribution to journalReview article

Embryonic Development
Theoretical Models
Drosophila melanogaster
Embryonic Structures
Gene Expression
2011
7 Citations (Scopus)

A theoretical analysis of filament length fluctuations in actin and other polymers

Hu, J. & Othmer, H. G., Dec 1 2011, In : Journal of Mathematical Biology. 63, 6, p. 1001-1049 49 p.

Research output: Contribution to journalArticle

pioglitazone
Actin
Filament
Actin Cytoskeleton
actin
26 Citations (Scopus)

Radial and spiral stream formation in proteus mirabilis colonies

Xue, C., Budrene, E. O. & Othmer, H. G., Dec 1 2011, In : PLoS Computational Biology. 7, 12, e1002332.

Research output: Contribution to journalArticle

Proteus mirabilis
Cell
Chirality
Biofilms
Pathogens
94 Citations (Scopus)

The role of the microenvironment in tumor growth and invasion

Kim, Y., Stolarska, M. A. & Othmer, H. G., Aug 1 2011, In : Progress in Biophysics and Molecular Biology. 106, 2, p. 353-379 27 p.

Research output: Contribution to journalReview article

Tumor Microenvironment
Growth
Neoplasms
Gene Regulatory Networks
Extracellular Matrix
2010
34 Citations (Scopus)

A multi-time-scale analysis of chemical reaction networks: I. Deterministic systems

Lee, C. H. & Othmer, H. G., Sep 1 2010, In : Journal of Mathematical Biology. 60, 3, p. 387-450 64 p.

Research output: Contribution to journalArticle

Chemical Reaction Networks
chemical reactions
Chemical reactions
Time Scales
Reaction Network
62 Citations (Scopus)

Organism-Scale Modeling of Early Drosophila Patterning via Bone Morphogenetic Proteins

Umulis, D. M., Shimmi, O., O'Connor, M. B. & Othmer, H. G., Feb 16 2010, In : Developmental Cell. 18, 2, p. 260-274 15 p.

Research output: Contribution to journalArticle

Bone Morphogenetic Proteins
Drosophila
Gene expression
Embryonic Structures
Feedback
2009
9 Citations (Scopus)

From individual to collective behavior of unicellular organisms: Recent results and open problems

Xue, C., Othmer, H. G. & Erban, R., Nov 30 2009, Multiscale Phenomena in Biology - Proceedings of the 2nd Conference on Mathematics and Biology. p. 3-14 12 p. (AIP Conference Proceedings; vol. 1167).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

organisms
partial differential equations
cells
cues
bacteria
71 Citations (Scopus)

Multi-scale models of cell and tissue dynamics

Stolarska, M. A., Yangjin, K. I. M. & Othmer, H. G., Sep 13 2009, In : Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences. 367, 1902, p. 3525-3553 29 p.

Research output: Contribution to journalArticle

multiscale models
Multiscale Model
Tissue
Cell
cells
81 Citations (Scopus)

Multiscale models of taxis-driven patterning in bacterial populations

Xue, C. & Othmer, H. G., Jul 1 2009, In : SIAM Journal on Applied Mathematics. 70, 1, p. 133-167 35 p.

Research output: Contribution to journalArticle

Signal transduction
Multiscale Model
Patterning
Bacteria
Cells
22 Citations (Scopus)

Spatiotemporal characteristics of calcium dynamics in astrocytes

Kang, M. & Othmer, H. G., Jan 1 2009, In : Chaos. 19, 3, 037116.

Research output: Contribution to journalArticle

Adenosine
adenosines
Calcium
calcium
Wave propagation
40 Citations (Scopus)

The intersection of theory and application in elucidating pattern formation in developmental biology

Othmer, H. G., Painter, K., Umulis, D. & Xue, C., Jan 1 2009, In : Mathematical Modelling of Natural Phenomena. 4, 4, p. 3-82 80 p.

Research output: Contribution to journalArticle

Developmental Biology
Pattern Formation
Intersection
Cells
Experiments
2008
35 Citations (Scopus)

Robustness of Embryonic Spatial Patterning in Drosophila melanogaster

Umulis, D., O'Connor, M. B. & Othmer, H. G., Jan 1 2008, Multiscale Modeling of Developmental Systems. Schnell, S., Maini, P., Newman, S. & Newman, T. (eds.). p. 65-111 47 p. (Current Topics in Developmental Biology; vol. 81).

Research output: Chapter in Book/Report/Conference proceedingChapter

Developmental Gene Expression Regulation
Insect Genes
Body Patterning
Drosophila Proteins
Biological Models
112 Citations (Scopus)

The BMP-Binding Protein Crossveinless 2 Is a Short-Range, Concentration-Dependent, Biphasic Modulator of BMP Signaling in Drosophila

Serpe, M., Umulis, D., Ralston, A., Chen, J., Olson, D. J., Avanesov, A., Othmer, H. G., O'Connor, M. B. & Blair, S. S., Jun 10 2008, In : Developmental Cell. 14, 6, p. 940-953 14 p.

Research output: Contribution to journalArticle

Gastrulation
Modulators
Drosophila
Carrier Proteins
Type I Bone Morphogenetic Protein Receptors
2007
103 Citations (Scopus)

A hybrid model for tumor spheroid growth in vitro I: Theoretical development and early results

Yangjin, K., Stolarska, M. A. & Othmer, H. G., Oct 19 2007, In : Mathematical Models and Methods in Applied Sciences. 17, SUPPL. 1, p. 1773-1798 26 p.

Research output: Contribution to journalArticle

Tumor Growth
Hybrid Model
Tumors
Continuum
Cell
14 Citations (Scopus)

A stochastic analysis of actin polymerization in the presence of twinfilin and gelsolin

Matzavinos, A. & Othmer, H. G., Dec 21 2007, In : Journal of Theoretical Biology. 249, 4, p. 723-736 14 p.

Research output: Contribution to journalArticle

Gelsolin
Administrative data processing
Microfilament Proteins
Stochastic Analysis
Actin
20 Citations (Scopus)

A theoretical approach to actin filament dynamics

Hu, J., Matzavinos, A. & Othmer, H. G., Jul 1 2007, In : Journal of Statistical Physics. 128, 1-2, p. 111-138 28 p.

Research output: Contribution to journalArticle

Actin
Filament
filaments
Time Scales
Invariant Distribution
38 Citations (Scopus)

Taxis equations for amoeboid cells

Erban, R. & Othmer, H. G., Jun 1 2007, In : Journal of Mathematical Biology. 54, 6, p. 847-885 39 p.

Research output: Contribution to journalArticle

taxis (physiology)
Statistics
Cell
cells
Periodic Wave

The dynamics of SQUIDs and coupled pendula

Aronson, D. G. & Othmer, H. G., Dec 1 2007, Numerical Continuation Methods for Dynamical Systems: Path following and boundary value problems. Springer Netherlands, p. 155-176 22 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

SQUID
Pendulum
Quantum Interference
Superconductor
Wave Function
15 Citations (Scopus)

The variety of cytosolic calcium responses and possible roles of PLC and PKC

Kang, M. & Othmer, H. G., Jan 1 2007, In : Physical Biology. 4, 4, p. 325-343 19 p.

Research output: Contribution to journalArticle

Type C Phospholipases
Protein Kinase C
Calcium
Endoplasmic Reticulum
Sarcoplasmic Reticulum Calcium-Transporting ATPases
2006
3 Citations (Scopus)

A model for a G-protein-mediated mechanism for synaptic channel modulation

Soto, G. & Othmer, H. G., Apr 1 2006, In : Mathematical Biosciences. 200, 2, p. 188-213 26 p.

Research output: Contribution to journalArticle

G Protein
G-proteins
Calcium
GTP-Binding Proteins
Modulation