David M. Umulis

发表

Ground Truth Annotator and 3D Dataset Generator for Validation of Nuclei Segmentation Programs

Xu Wang, Tzu-Ching Wu, David M. Umulis, 2019, 2019 12th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics (CISP-BMEI).

The acquisition of positional information in the developing cochlea

David M. Umulis, Vidhya Munnamalai, Caryl Young, 2020 .

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

David M. Umulis, Hans G. Othmer, Md. Shahriar Karim, 2018, 2018 26th Euromicro International Conference on Parallel, Distributed and Network-based Processing (PDP).

Pharris et al. MethodsX (2017) Supplemental Data Set

Xu Wang, David M. Umulis, Xinping Chen, 2017 .

Model-Based Analysis for Qualitative Data: An Application in Drosophila Germline Stem Cell Regulation

Gregery T. Buzzard, Ann E. Rundell, David M. Umulis, 2014, PLoS Comput. Biol..

A point matching algorithm for point set registration

Yan Huang, David M. Umulis, 2016, 2016 9th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics (CISP-BMEI).

Qualitative Findings from Study of Interdisciplinary Education in Computational Modeling for Life Sciences Student Researchers from Emerging Research Institutions

James A. Glazier, Monica Cardella, David M. Umulis, 2018, 2018 IEEE Frontiers in Education Conference (FIE).

Steady state probability approximation applied to stochastic model of biological network

Gregery T. Buzzard, David M. Umulis, Md. Shahriar Karim, 2011, 2011 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS).

Automatic wavelet-based 3D nuclei segmentation and analysis for multicellular embryo quantification

Xu Wang, David M. Umulis, Tzu-Ching Wu, 2020, Scientific Reports.

Scale invariance of morphogen-mediated patterning by flux optimization

David M. Umulis, Hans G. Othmer, H. Othmer, 2012, 2012 5th International Conference on BioMedical Engineering and Informatics.

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

Ann E. Rundell, David M. Umulis, Tamara Kinzer-Ursem, 2017, BMC Systems Biology.

Factors Mediating Learning and Application of Computational Modeling by Life Scientists

James A. Glazier, Monica Cardella, David M. Umulis, 2018, 2018 IEEE Frontiers in Education Conference (FIE).

Publisher’s Note: Label-Free Bond-Selective Imaging by Listening to Vibrationally Excited Molecules [Phys. Rev. Lett. 106 , 238106 (2011)]

Robert P. Lucht, Lihong V. Wang, Ji-Xin Cheng, 2011 .

Effects of Carbon Nanotube-Tethered Nanosphere Density on Amperometric Biosensing: Simulation and Experiment

Jonathan C. Claussen, D. Marshall Porterfield, Timothy S. Fisher, 2011 .

Facilitated Transport of a Dpp/Scw Heterodimer by Sog/Tsg Leads to Robust Patterning of the Drosophila Blastoderm Embryo

David M. Umulis, H. Othmer, D. Umulis, 2005, Cell.

Phenotypical microRNA screen reveals a noncanonical role of CDK2 in regulating neutrophil migration

David M. Umulis, D. Umulis, J. Wan, 2019, Proceedings of the National Academy of Sciences.

Diversity and robustness of bone morphogenetic protein pattern formation

David M. Umulis, D. Umulis, M. Mullins, 2021, Development.

Scale invariance of BMP signaling gradients in zebrafish

David M. Umulis, D. Umulis, Y. Huang, 2018, Scientific Reports.

Systems biology derived source-sink mechanism of BMP gradient formation

David M. Umulis, D. Umulis, Xu Wang, 2017, eLife.

Computational modeling of TGF-β2:TβRI:TβRII receptor complex assembly as mediated by the TGF-β co-receptor betaglycan

David M. Umulis, A. Hinck, D. Umulis, 2022, bioRxiv.

Label-free bond-selective imaging by listening to vibrationally excited molecules.

Lihong V. Wang, Ji-Xin Cheng, David M. Umulis, 2011, Physical review letters.

Robustness of embryonic spatial patterning in Drosophila melanogaster.

David M. Umulis, Hans G Othmer, David Umulis, 2008, Current topics in developmental biology.

Mechanisms of scaling in pattern formation

David M. Umulis, H. Othmer, D. Umulis, 2013, Development.

Shaping BMP morphogen gradients through enzyme-substrate interactions.

David M. Umulis, David Umulis, D. Umulis, 2011, Developmental cell.

Analysis of dynamic morphogen scale invariance

David M. Umulis, David M Umulis, D. Umulis, 2009, Journal of The Royal Society Interface.

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

David M. Umulis, Hans G Othmer, David M Umulis, 2006, Proceedings of the National Academy of Sciences of the United States of America.

The BMP-binding protein Crossveinless 2 is a short-range, concentration-dependent, biphasic modulator of BMP signaling in Drosophila.

David M. Umulis, Jun Chen, D. J. Olson, 2008, Developmental cell.

Shaping BMP morphogen gradients in the Drosophila embryo and pupal wing

David M. Umulis, Hans G Othmer, David Umulis, 2005, Development.

Brat Promotes Stem Cell Differentiation via Control of a Bistable Switch that Restricts BMP Signaling

David M. Umulis, Michael Pargett, Hilary L. Ashe, 2011, Developmental cell.

Proteolytic Restriction of Chordin Range Underlies BMP Gradient Formation

David M. Umulis, D. Umulis, Xu Wang, 2020, Cell reports.

Determining the role of advection in patterning by bone morphogenetic proteins through neural network model-based acceleration of a 3D finite element model of the zebrafish embryo

David M. Umulis, D. Umulis, Linlin Li, 2022, Frontiers in Systems Biology.

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

David M. Umulis, Hans G Othmer, David M Umulis, 2015, Bulletin of mathematical biology.

The extracellular regulation of bone morphogenetic protein signaling

David M. Umulis, David Umulis, S. Blair, 2009, Development.

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

David M. Umulis, David M Umulis, Michael Pargett, 2013, Methods.

Regulation of BMP activity and range in Drosophila wing development.

David M. Umulis, D. Umulis, L. Raftery, 2012, Current opinion in cell biology.

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

Delong Zhang, Ji-Xin Cheng, David M. Umulis, 2012, Biophysical journal.

The Intersection of Theory and Application in Elucidating Pattern Formation in Developmental Biology.

David M. Umulis, K. Painter, H. Othmer, 2009, Mathematical modelling of natural phenomena.

A Primer on Reaction–Diffusion Models in Embryonic Development

David M. Umulis, H. Othmer, D. Umulis, 2018, eLS.

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

Gregery T Buzzard, David M. Umulis, David M Umulis, 2012, Journal of The Royal Society Interface.

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

David M. Umulis, H. Othmer, D. Umulis, 2010, Developmental cell.

Correction for Hsu et al., Phenotypical microRNA screen reveals a noncanonical role of CDK2 in regulating neutrophil migration

David M. Umulis, J. Wan, A. Huttenlocher, 2020, Proceedings of the National Academy of Sciences.

PDE-constrained shape registration to characterize biological growth and morphogenesis from imaging data

David M. Umulis, D. Umulis, A. Gosain, 2022, Engineering with Computers.

LobeFinder: A Convex Hull-Based Method for Quantitative Boundary Analyses of Lobed Plant Cells1[OPEN]

David M. Umulis, D. Szymanski, Tzu-Ching Wu, 2016, Plant Physiology.

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

David M. Umulis, H. S. Fogler, D. Umulis, 2005, Alcohol.

Imaging and Quantification of P-Smad1/5 in Zebrafish Blastula and Gastrula Embryos.

David M. Umulis, D. Umulis, M. Mullins, 2018, Methods in molecular biology.

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

David M. Umulis, Alexander Brooks, Michael Pargett, 2012, FEBS letters.

Mechanisms and Measurements of Scale Invariance of Morphogen Gradients.

David M. Umulis, D. Umulis, Y. Huang, 2018, Methods in molecular biology.

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

David M. Umulis, H. Othmer, D. Umulis, 2014, Bulletin of Mathematical Biology.

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

David M. Umulis, D. Umulis, G. Buzzard, 2012, BMC Genomics.

No 16 Leveraging compute clusters for large-scale parametric screens of reaction-diffusion systems

David M. Umulis, Md. Shahriar Karim, H. Othmer, 2022 .

Automatic wavelet-based 3D nuclei segmentation and analysis for multicellular embryo quantification

David M. Umulis, Linlin Li, Xu Wang, 2021, Scientific Reports.

Fluorescent imaging of protein myristoylation during cellular differentiation and development

David M. Umulis, Tamara L. Kinzer-Ursem, D. Umulis, 2017, Journal of Lipid Research.

Mitofusin 2 regulates neutrophil adhesive migration and the actin cytoskeleton

David M. Umulis, D. Umulis, M. Seleem, 2020, Journal of Cell Science.

Mitofusin 2 regulates neutrophil adhesive migration and the actin cytoskeleton

David M. Umulis, D. Umulis, M. Seleem, 2019, bioRxiv.

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

David M. Umulis, Vikki M. Weake, Matthew C. Pharris, 2017, MethodsX.

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

David M. Umulis, D. Umulis, Taeyoon Kim, 2019, Bulletin of Mathematical Biology.

Optimal performance objectives in the highly conserved bone morphogenetic protein signaling pathway

David M. Umulis, Linlin Li, Donny Hanjaya-Putra, 2024, NPJ systems biology and applications.