Modeling the Living Embryo

TSC tunes progenitor balance and upper-layer neuron generation in neocortex

Casingal, C. R., Nakagawa, N., Yabuno-Nakagawa, K., Meyer, C., Liu, S., Gkini, V., … Anton, E. S. (2025, December 3). Nature.

Intelligent Beam Optimization for Light-Sheet Fluorescence Microscopy through Deep Learning

Li, C., Rai, M. R., Cai, Y., Ghashghaei, H. T., & Greenbaum, A. (2024, January 1). Intelligent Computing.

The people behind the papers – Julia Grzymkowski and Nanette Nascone-Yoder

Grzymkowski, J., & Nascone-Yoder, N. (2024, February 15). Development, Vol. 151.

Developmental regulation of cellular metabolism is required for intestinal elongation and rotation

Grzymkowski, J. K., Chiu, Y.-C., Jima, D. D., Wyatt, B. H., Jayachandran, S., Stutts, W. L., & Nascone-Yoder, N. M. (2024, February 15). Development, Vol. 151.

Morphoelastic models discriminate between different mechanisms of left-right asymmetric stomach morphogenesis

Nikas, A. N., Curcio, E. J., Nascone-Yoder, N., & Lubkin, S. R. (2024, January 26). Cells and Development, Vol. 177.

Rare variants in CAPN2 increase risk for isolated hypoplastic left heart syndrome

Blue, E. E., White, J. J., Dush, M. K., Gordon, W. W., Wyatt, B. H., White, P., … Bamshad, M. J. (2023, August 11). Human Genetics and Genomics Advances, Vol. 4.

Deep learning-based adaptive optics for light sheet fluorescence microscopy

Rai, M. R., Li, C., Ghashghaei, H. T., & Greenbaum, A. (2023, May 19). Biomedical Optics Express.

Bulk and mosaic deletions of Egfr reveal regionally defined gliogenesis in the developing mouse forebrain

IScience, 26(3), 106242.

COMBINe enables automated detection and classification of neurons and astrocytes in tissue-cleared mouse brains

Cai, Y., Zhang, X., Li, C., Ghashghaei, H. T., & Greenbaum, A. (2023, April 1). Cell Reports Methods.

Normal Table of Xenopus development: a new graphical resource

Zahn, N., James-Zorn, C., Ponferrada, V. G., Adams, D. S., Grzymkowski, J., Buchholz, D. R., … Zorn, A. M. (2022, July 14). Development, Vol. 149.

Illumination angle correction during image acquisition in light-sheet fluorescence microscopy using deep learning

Li, C., Rai, M. R., Ghashghaei, H. T., & Greenbaum, A. (2022, January 6). Biomedical Optics Express.

Phosphorylation-dependent proteome of Marcks in ependyma during aging and behavioral homeostasis in the mouse forebrain

Muthusamy, N., Williams, T. I., Ryan, O. T., Brudvig, J. J., Adler, K. B., Weimer, J. M., … Ghashghaei, H. T. (2022, January 24). GeroScience, Vol. 1, pp. 2077–2094.

Detection and classification of neurons and glial cells in the MADM mouse brain using RetinaNet

Cai, Y., Zhang, X., Kovalsky, S. Z., Ghashghaei, H. T., & Greenbaum, A. (2021, September 24). PLoS ONE.

Deep learning-based autofocus method enhances image quality in light-sheet fluorescence microscopy: publisher’s note

Li, C., Moatti, A., Zhang, X., Ghashghaei, H. T., & Greenbaum, A. (2021, December 8). Biomedical Optics Express.

Single-minded 2 is required for left-right asymmetric stomach morphogenesis

Wyatt, B. H., Amin, N. M., Bagley, K., Wcisel, D. J., Dush, M. K., Yoder, J. A., & Nascone-Yoder, N. M. (2021, July 1). Development, Vol. 9.

Deep learning-based autofocus method enhances image quality in light-sheet fluorescence microscopy

Li, C., Moatti, A., Zhang, X., Ghashghaei, H. T., & Greenbaum, A. (2021, July 7). Biomedical Optics Express, Vol. 12, p. 5214.

The twists and turns of left-right asymmetric gut morphogenesis

Grzymkowski, J., Wyatt, B., & Nascone-Yoder, N. (2020, October 1). Development, Vol. 147.

Sp2 regulates late neurogenic but not early expansive divisions of neural stem cells underlying population growth in the mouse cortex

Johnson, C. A., & Ghashghaei, H. T. (2020, January 1). Development.

The people behind the papers – Caroline Johnson and Troy Ghashghaei

Johnson, C., Ghashghaei, T., Johnson, C., & Ghashghaei, H. (2020, February 15). Development.

Ependyma‐expressed CCN 1 restricts the size of the neural stem cell pool in the adult ventricular‐subventricular zone

Wu, J., Tian, W. J., Liu, Y., Wang, H. J., Zheng, J., Wang, X., … Shen, Q. (2020, February 3). The EMBO Journal.

Exome sequencing of family trios from the National Birth Defects Prevention Study: Tapping into a rich resource of genetic and environmental data

Jenkins, M. M., Almli, L. M., Pangilinan, F., Chong, J. X., Blue, E. E., Shapira, S. K., … Study, T. N. B. D. P. (2019, July 21). Birth Defects Research, Vol. 111, pp. 1618–1632.

Vangl2 coordinates cell rearrangements during gut elongation

Dush, M. K., & Nascone‐Yoder, N. M. (2019, May 13). Developmental Dynamics, Vol. 248, pp. 569–582.

To scratch an itch: Establishing a mouse model to determine active brain areas involved in acute histaminergic itch

IBRO Reports, 5, 67–73.

MARCKS regulates neuritogenesis and interacts with a CDC42 signaling network

Brudvig, J. J., Cain, J. T., Sears, R. M., Schmidt-Grimminger, G. G., Wittchen, E. S., Adler, K. B., … Weimer, J. M. (2018, August 30). Scientific Reports.

Foxj1 expressing ependymal cells do not contribute new cells to sites of injury or stroke in the mouse forebrain

Muthusamy, N., Brumm, A., Zhang, X., Carmichael, S. T., & Ghashghaei, H. T. (2018, January 23). Scientific Reports.