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Items: 22


Scale invariance of BMP signaling gradients in zebrafish.

Huang Y, Umulis DM.

Sci Rep. 2019 Apr 1;9(1):5440. doi: 10.1038/s41598-019-41840-8.


Interplay Between the Persistent Random Walk and the Contact Inhibition of Locomotion Leads to Collective Cell Behaviors.

Hassan AR, Biel T, Umulis DM, Kim T.

Bull Math Biol. 2019 Feb 20. doi: 10.1007/s11538-019-00585-1. [Epub ahead of print]


An automated workflow for quantifying RNA transcripts in individual cells in large data-sets.

Pharris MC, Wu TC, Chen X, Wang X, Umulis DM, Weake VM, Kinzer-Ursem TL.

MethodsX. 2017 Sep 1;4:279-288. doi: 10.1016/j.mex.2017.08.002. eCollection 2017.


An Integrative multi-lineage model of variation in leukopoiesis and acute myelogenous leukemia.

Sarker JM, Pearce SM, Nelson RP Jr, Kinzer-Ursem TL, Umulis DM, Rundell AE.

BMC Syst Biol. 2017 Aug 25;11(1):78. doi: 10.1186/s12918-017-0469-2.


Fluorescent imaging of protein myristoylation during cellular differentiation and development.

Witten AJ, Ejendal KFK, Gengelbach LM, Traore MA, Wang X, Umulis DM, Calve S, Kinzer-Ursem TL.

J Lipid Res. 2017 Oct;58(10):2061-2070. doi: 10.1194/jlr.D074070. Epub 2017 Jul 28.


LobeFinder: A Convex Hull-Based Method for Quantitative Boundary Analyses of Lobed Plant Cells.

Wu TC, Belteton SA, Pack J, Szymanski DB, Umulis DM.

Plant Physiol. 2016 Aug;171(4):2331-42. doi: 10.1104/pp.15.00972. Epub 2016 Jun 10.


The role of mathematical models in understanding pattern formation in developmental biology.

Umulis DM, Othmer HG.

Bull Math Biol. 2015 May;77(5):817-45. doi: 10.1007/s11538-014-0019-7. Epub 2014 Oct 4.


Making models match measurements: model optimization for morphogen patterning networks.

Hengenius JB, Gribskov M, Rundell AE, Umulis DM.

Semin Cell Dev Biol. 2014 Nov;35:109-23. doi: 10.1016/j.semcdb.2014.06.017. Epub 2014 Jul 9. Review.


Model-based analysis for qualitative data: an application in Drosophila germline stem cell regulation.

Pargett M, Rundell AE, Buzzard GT, Umulis DM.

PLoS Comput Biol. 2014 Mar 13;10(3):e1003498. doi: 10.1371/journal.pcbi.1003498. eCollection 2014 Mar.


Mechanisms of scaling in pattern formation.

Umulis DM, Othmer HG.

Development. 2013 Dec;140(24):4830-43. doi: 10.1242/dev.100511. Review.


Quantitative model analysis with diverse biological data: applications in developmental pattern formation.

Pargett M, Umulis DM.

Methods. 2013 Jul 15;62(1):56-67. doi: 10.1016/j.ymeth.2013.03.024. Epub 2013 Apr 2. Review.


Efficient calculation of steady state probability distribution for stochastic biochemical reaction network.

Karim S, Buzzard GT, Umulis DM.

BMC Genomics. 2012;13 Suppl 6:S10. doi: 10.1186/1471-2164-13-S6-S10. Epub 2012 Oct 26.


The importance of geometry in mathematical models of developing systems.

Umulis DM, Othmer HG.

Curr Opin Genet Dev. 2012 Dec;22(6):547-52. doi: 10.1016/j.gde.2012.09.007. Epub 2012 Oct 27. Review.


BMP signaling in wing development: A critical perspective on quantitative image analysis.

Brooks A, Dou W, Yang X, Brosnan T, Pargett M, Raftery LA, Umulis DM.

FEBS Lett. 2012 Jul 4;586(14):1942-52. doi: 10.1016/j.febslet.2012.03.050. Epub 2012 Mar 31. Review.


Label-free imaging of lipid-droplet intracellular motion in early Drosophila embryos using femtosecond-stimulated Raman loss microscopy.

Dou W, Zhang D, Jung Y, Cheng JX, Umulis DM.

Biophys J. 2012 Apr 4;102(7):1666-75. doi: 10.1016/j.bpj.2012.01.057. Epub 2012 Apr 3.


Regulation of BMP activity and range in Drosophila wing development.

Raftery LA, Umulis DM.

Curr Opin Cell Biol. 2012 Apr;24(2):158-65. doi: 10.1016/ Epub 2011 Dec 5. Review.


Analysis of gap gene regulation in a 3D organism-scale model of the Drosophila melanogaster embryo.

Hengenius JB, Gribskov M, Rundell AE, Fowlkes CC, Umulis DM.

PLoS One. 2011;6(11):e26797. doi: 10.1371/journal.pone.0026797. Epub 2011 Nov 16.


Secreted, receptor-associated bone morphogenetic protein regulators reduce stochastic noise intrinsic to many extracellular morphogen distributions.

Karim MS, Buzzard GT, Umulis DM.

J R Soc Interface. 2012 May 7;9(70):1073-83. doi: 10.1098/rsif.2011.0547. Epub 2011 Oct 19.


Organism-scale modeling of early Drosophila patterning via bone morphogenetic proteins.

Umulis DM, Shimmi O, O'Connor MB, Othmer HG.

Dev Cell. 2010 Feb 16;18(2):260-74. doi: 10.1016/j.devcel.2010.01.006.


Analysis of dynamic morphogen scale invariance.

Umulis DM.

J R Soc Interface. 2009 Dec 6;6(41):1179-91. doi: 10.1098/rsif.2009.0015. Epub 2009 Mar 11.


Robust, bistable patterning of the dorsal surface of the Drosophila embryo.

Umulis DM, Serpe M, O'Connor MB, Othmer HG.

Proc Natl Acad Sci U S A. 2006 Aug 1;103(31):11613-8. Epub 2006 Jul 24.


A physiologically based model for ethanol and acetaldehyde metabolism in human beings.

Umulis DM, G├╝rmen NM, Singh P, Fogler HS.

Alcohol. 2005 Jan;35(1):3-12. Review.


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