Steady state probability approximation applied to stochastic model of biological network. - Md. Shahriar Karim; David M. Umulis; Gregery T. Buzzard (GENSiPS, 2011)

Scale invariance of morphogen-mediated patterning by flux optimization. - David M. Umulis; Hans G. Othmer (BMEI, 2012)

Model-Based Analysis for Qualitative Data: An Application in Drosophila Germline Stem Cell Regulation. - Michael Pargett; Ann E. Rundell; Gregery T. Buzzard; David M. Umulis (PLoS Comput. Biol., 2014)

A point matching algorithm for point set registration. - Yan Huang; David M. Umulis (CISP-BMEI, 2016)

An Integrative multi-lineage model of variation in leukopoiesis and acute myelogenous leukemia. - Joyatee M. Sarker; Serena M. Pearce; Robert P. Nelson Jr.; Tamara Kinzer-Ursem; David M. Umulis; Ann E. Rundell (BMC Syst. Biol., 2017)

Factors Mediating Learning and Application of Computational Modeling by Life Scientists. - Aasakiran Madamanchi; Monica E. Cardella; James A. Glazier; David M. Umulis (FIE, 2018)

Qualitative Findings from Study of Interdisciplinary Education in Computational Modeling for Life Sciences Student Researchers from Emerging Research Institutions. - Aasakiran Madamanchi; Shenika V. Poindexter; Monica E. Cardella; James A. Glazier; David M. Umulis (FIE, 2018)

Leveraging Compute Clusters for Large-Scale Parametric Screens of Reaction-Diffusion Systems. - Md. Shahriar Karim; Hans G. Othmer; David M. Umulis (PDP, 2018)

Ground Truth Annotator and 3D Dataset Generator for Validation of Nuclei Segmentation Programs. - Tzu-Ching Wu; Xu Wang; David M. Umulis (CISP-BMEI, 2019)

Computation, Gender, and Engineering Identity Among Biomedical Engineering Undergraduates. - Huma Shoaib; Monica E. Cardella; Aasakiran Madamanchi; David M. Umulis (FIE, 2019)

An Investigation of Undergraduates' Computational Thinking in a Sophomore-Level Biomedical Engineering Course. - Huma Shoaib; Monica Cardella; Aasakiran Madamanchi; David M. Umulis (FIE, 2019)

Heterodimer-heterotetramer formation mediates enhanced sensor activity in a biophysical model for BMP signaling. - Md. Shahriar Karim; Aasakiran Madamanchi; James A. Dutko; Mary C. Mullins; David M. Umulis (PLoS Comput. Biol., 2021)

PDE-constrained shape registration to characterize biological growth and morphogenesis from imaging data. - Aishwarya Pawar; Linlin Li; Arun Gosain; David M. Umulis; Adrian Buganza Tepole (Eng. Comput., 2022)

3D nuclei segmentation for multi-cellular quantification of zebrafish embryos using NISNet3D. - Linlin Li; Liming Wu; Alain Chen; Edward J. Delp; David M. Umulis (3DIA, 2023)

Inverse Problem Antidote (IPA): Modeling of Systems Biology Model with Invertible Neural Networks. - Linlin Li; Shenyu Lu; David M. Umulis; Xiaoqian Wang 001 (BIBM, 2024)