William R. Holmes, Ph.D.

Assistant Professor

Faculty Appointments
Assistant Professor of Physics
Ph.D., Mathematics, Indiana University, Bloomington, IndianaM.A., Mathematics, Indiana University, Bloomington, IndianaB.S., Engineering Physics, University of Tennessee, Knoxville, Tennessee
Research Keywords
Mathematical Modeling Computational Modeling Spatial Organization Biochemical Regulation
Park J, Holmes WR, Lee SH, Kim HN, Kim DH, Kwak MK, Wang CJ, Edelstein-Keshet L, Levchenko A. Mechanochemical feedback underlies coexistence of qualitatively distinct cell polarity patterns within diverse cell populations. Proc. Natl. Acad. Sci. U.S.A [print-electronic]. 2017 Jul 7/11/2017; 114(28): E5750-E5759. PMID: 28655842, PMCID: PMC5514712, PII: 1700054114, DOI: 10.1073/pnas.1700054114, ISSN: 1091-6490.

Holmes WR, Trueblood JS. Bayesian analysis of the piecewise diffusion decision model. Behav Res Methods [print-electronic]. 2017 Jun 6/8/2017; PMID: 28597236, PII: 10.3758/s13428-017-0901-y, DOI: 10.3758/s13428-017-0901-y, ISSN: 1554-3528.

Holmes WR, Park J, Levchenko A, Edelstein-Keshet L. A mathematical model coupling polarity signaling to cell adhesion explains diverse cell migration patterns. PLoS Comput. Biol. 2017 May; 13(5): e1005524. PMID: 28472054, PMCID: PMC5436877, PII: PCOMPBIOL-D-17-00121, DOI: 10.1371/journal.pcbi.1005524, ISSN: 1553-7358.

Wang Q, Holmes WR, Sosnik J, Schilling T, Nie Q. Cell Sorting and Noise-Induced Cell Plasticity Coordinate to Sharpen Boundaries between Gene Expression Domains. PLoS Comput. Biol. 2017 Jan; 13(1): e1005307. PMID: 28135279, PMCID: PMC5279720, PII: PCOMPBIOL-D-16-01455, DOI: 10.1371/journal.pcbi.1005307, ISSN: 1553-7358.

Holmes WR, Reyes de Mochel NS, Wang Q, Du H, Peng T, Chiang M, Cinquin O, Cho K, Nie Q. Gene Expression Noise Enhances Robust Organization of the Early Mammalian Blastocyst. PLoS Comput. Biol. 2017 Jan; 13(1): e1005320. PMID: 28114387, PMCID: PMC5293272, PII: PCOMPBIOL-D-16-01535, DOI: 10.1371/journal.pcbi.1005320, ISSN: 1553-7358.

Walsh DM, Röth PT, Holmes WR, Landman KA, Merson TD, Hughes BD. Is cell migration or proliferation dominant in the formation of linear arrays of oligodendrocytes?. J. Theor. Biol [print-electronic]. 2016 Oct 10/7/2016; 406: 17-30. PMID: 27343034, PII: S0022-5193(16)30162-X, DOI: 10.1016/j.jtbi.2016.06.028, ISSN: 1095-8541.

Holmes WR, Golding AE, Bement WM, Edelstein-Keshet L. A mathematical model of GTPase pattern formation during single-cell wound repair. Interface Focus. 2016 Oct 10/6/2016; 6(5): 20160032. PMID: 27708759, PMCID: PMC4992738, PII: rsfs20160032, DOI: 10.1098/rsfs.2016.0032, ISSN: 2042-8898.

Holmes WR, Edelstein-Keshet L. Analysis of a minimal Rho-GTPase circuit regulating cell shape. Phys Biol. 2016 Jul 7/19/2016; 13(4): 46001. PMID: 27434017, DOI: 10.1088/1478-3975/13/4/046001, ISSN: 1478-3975.

Holmes WR, Trueblood JS, Heathcote A. A new framework for modeling decisions about changing information: The Piecewise Linear Ballistic Accumulator model. Cogn Psychol [print-electronic]. 2016 Mar; 85: 1-29. PMID: 26760448, PMCID: PMC4874184, DOI: 10.1016/j.cogpsych.2015.11.002, ISSN: 1095-5623.

Du H, Nie Q, Holmes WR. The Interplay between Wnt Mediated Expansion and Negative Regulation of Growth Promotes Robust Intestinal Crypt Structure and Homeostasis. PLoS Comput. Biol. 2015 Aug; 11(8): e1004285. PMID: 26288152, PMCID: PMC4543550, PII: PCOMPBIOL-D-14-02327, DOI: 10.1371/journal.pcbi.1004285, ISSN: 1553-7358.