Click here for full list of publications.
Note: asterisk indicates shared first authorship.
Dima et al., 2026
Dorsal forms clusters above a concentration threshold.
Dima, S. S.; Turner, M. A.; Garcia, H. G. & Reeves, G. T. (2026). Global maps of transcription factor properties reveal threshold-based formation of DNA-bound and mobile clusters. Sci Adv, 12: eady3909.
[Read more in this press release.]
Dima and Reeves, 2025
Input/output maps of pioneer factors.
Dima, S. S. & Reeves, G. T. (2025). Bulk-level maps of pioneer factor binding dynamics during the Drosophila maternal-to-zygotic transition. Development, 152: dev.204460.
Schloop et al., 2025
Imaging the IkappaB inhibitor, Cactus.
Schloop, A. E.; Hiremath, S. V.; Shaikh, R.; Dima, S. S.; Lizardo, L.; Bhakta, A.; Williams, C. M. & Reeves, G. T. (2025). Spatiotemporal dynamics of NF-κB/Dorsal inhibitor IκBα/Cactus in Drosophila blastoderm embryos. iScience, 28: 112854.
Al Asafen, Clark, Goyal, et al., 2024
Raster image correlation spectroscopy of Dorsal.
Al Asafen, H.*; Clark, N. M.*; Goyal, E.*; Jacobsen, T.; Dima, S. S.; Chen, H.-Y.; Sozzani, R. & Reeves, G. T. (2024). Dorsal/NF-κB exhibits a dorsal-to-ventral mobility gradient in the Drosophila embryo. Reviewed preprint in eLife, 13: RP100462.
Shaikh et al., 2024
A signaling pathway has the flexibility to balancing trade-offs in performance across the animal kingdom.
Shaikh, R.; Larson, N. J.; Kam, J.; Hanjaya-Putra, D.; Zartman, J.; Umulis, D. M.; Li, L. & Reeves, G. T. (2024). Optimal performance objectives in the highly conserved bone morphogenetic protein signaling pathway. npj Systems Biology and Applications, 10: 1-13.
Al Asafen, Beseli, et al., 2024
Live measurements of BMP dynamics and gene expression.
Al Asafen, H.*; Beseli, A.*; Chen, H.-Y.; Hiremath, S.; Williams, C. M. & Reeves, G. T. (2024). Dynamics of BMP signaling and stable gene expression in the early Drosophila embryo. Biol Open, 13: bio061646.
Bandodkar, Shaikh, & Reeves, 2023
Methods to optimize models to data.
Bandodkar, P. U.*; Shaikh, R. R.* & Reeves, G. T. (2023). ISRES+: An improved evolutionary strategy for function minimization to estimate the free parameters of Systems Biology models. Bioinformatics, 39 (7):btad403.
[Read more in this press release.]
McArthur et al., 2022
Simple, quantitative readouts of protein concentration.
McArthur, N.; Cruz-Teran, C.; Thatavarty, A.; Reeves, G. T. & Rao, B. M. (2022). Experimental and Analytical Framework for “Mix-and-Read” Assays Based on Split Luciferase. ACS Omega, 7: 24551-24560. doi: 10.1021/acsomega.2c02319.
[Read more in this press release.]
Bandodkar et al., 2020
Feedforward control stabilizes morphogen gradients that vary in both space and time.
Bandodkar, P. U.; Al Asafen, H. & Reeves, G. T. (2020). Spatiotemporal control of gene expression boundaries using a feedforward loop. Dev Dyn, 249: 369-382. doi: 10.1002/dvdy.150
[Invited for a special issue: “50 Years of Positional Information in Development, Disease, and Regeneration.”]
Al Asafen, Bandodkar, Carrell, et al., 2020
Dorsal target gene expression is unexpectedly robust. Mechanistic modeling reveals why.
Al Asafen, H.*; Bandodkar, P. U.*; Carrell-Noel, S.*; Schloop, A. E.; Friedman, J. & Reeves, G. T. (2020). Robustness of the Dorsal morphogen gradient with respect to morphogen dosage. PLoS Computational Biology, 16: e1007750. doi: 10.1371/journal.pcbi.1007750
Reeves, 2019
Combining feedforward and feedback control is beneficial in both man-made and biological systems.
Reeves, G. T. (2019). The engineering principles of combining a transcriptional incoherent feedforward loop with negative feedback. Journal of biological engineering, 13: 62. doi: 10.1186/s13036-019-0190-3
[Invited for a special issue: “Emerging leaders in Biological Engineering.”]
Carrell, O’Connell, et al., 2017
A signaling gradient goes against the grain: diffusion causes accumulation instead of spreading.
Carrell, S. N.*; O’Connell M. D.*; Jacobsen, T.; Pomeroy, A. E.; Hayes, S. M. & Reeves, G. T. (2017). A facilitated diffusion mechanism establishes the Drosophila Dorsal gradient. Development, 144: 4450-4461. doi: 10.1242/dev.155549
[Published in a special issue of Development: “On Growth and Form, 100 years on.”]
O’Connell and Reeves, 2015
Computational modeling of the Dorsal gradient suggests that Dorsal/Cactus complex is present in the nucleus.
O’Connell, M. D. & Reeves, G. T. (2015). The presence of nuclear Cactus in the early Drosophila embryo may extend the dynamic range of the Dorsal gradient. PLoS Comput Biol, 11: e1004159. doi: 10.1371/journal.pcbi.1004159
Reeves, Trisnadi, et al., 2012
Live imaging of the Dorsal gradient found it to be highly dynamic.
Reeves, G. T.*; Trisnadi, N.*; Truong, T. V.; Nahmad, M.; Katz, S. & Stathopoulos, A. (2012). Dorsal-Ventral Gene Expression in the Drosophila Embryo Reflects the Dynamics and Precision of the Dorsal Nuclear Gradient. Dev Cell, 22: 544-557. doi: 10.1016/j.devcel.2011.12.007
Liberman, Reeves, et al., 2009
Detailed, quantitative measurements of the Dorsal gradient found it to be surprisingly narrow.
Liberman, L. M.*; Reeves, G.T.* & Stathopoulos, A. (2009). Quantitative imaging of the Dorsal nuclear gradient reveals limitations to threshold-dependent patterning in Drosophila. Proc Natl Acad Sci U S A, 106: 22317-22322. doi: 10.1073/pnas.0906227106.
Reeves and Stahopoulos, 2009
The Dorsal gradient divides the embryo into roughly three domains.
Reeves, G.T. & Stathopoulos, A. (2009). Cold Spring Harb Perspect Biol, “Perspectives on Generation and Interpretation of Morphogen Gradients.” doi: 10.1101/cshperspect.a000836.