The paper presents a model of dynamic spatial and temporal patterning in the embryonic basal ganglia, showing how progenitor movement and transcriptional changes lead to diverse neuronal subtypes.

bioRxiv · Apr 15, 2026 · PreprintDevelopmental Biology

A curvilinear coordinate flatmap for visualizing hippocampal structure and development

Ashwin A. Bhandiwad, Fae N. Kronman, Josephine K. Liwang, Pan Gao, Cyrille Rossant, Daniel Birman, Luis Puelles, Song‐Lin Ding, Xiangmin Xu, Lydia Ng, Yongsoo Kim, Tyler S. Mollenkopf

This paper introduces a curvilinear coordinate flatmap method to visualize hippocampal structure and development, revealing topographic variations obscured in standard coordinate systems.

Imaging Neuroscience · Jan 1, 2026Peer-reviewedNeuroscience

Developmental Mouse Brain Common Coordinate Framework

Fae N. Kronman, Josephine K. Liwang, Rebecca Betty, Daniel J. Vanselow, Yuan-Ting Wu, Nicholas James Tustison, Ashwin A. Bhandiwad, Steffy B. Manjila, Jennifer A. Minteer, Donghui Shin, Choong H. Lee, Rohan Patil, Jeffrey Duda, Jian Xue, Yingxi Lin, , Yongsoo Kim

The paper develops a 3D developmental common coordinate framework (DevCCF) for mouse brains across multiple developmental stages to enable data integration and analysis of brain development.

Nature Communications · Oct 21, 2024Peer-reviewedNeuroscience

Single Cell Enhancer Activity Maps Neuronal Lineages in Embryonic Mouse Basal Ganglia

Linda Su-Feher, Anna Noren Rubin, Shanni N. Silberberg, Rinaldo Catta-Preta, Kenneth J. Lim, Iva Zdilar, Christopher S. McGinnis, Gabriel L. McKinsey, Thomas E. Rubino, Michael Hawrylycz, Carol L. Thompson, Zev J. Gartner, Luis Puelles, Hongkui Zeng, John L.R. Rubenstein, Alex S. Nord

The paper uses scRNA-seq and enhancer-based labeling to map neuronal lineages in embryonic mouse basal ganglia and identifies novel lineage specification paths.

bioRxiv · Jan 11, 2021 · PreprintNeuroscience