Project Description

Welcome to ImmGenMaps - the new mouse cartography project of the Immunological Genome Project Consortium (ImmGen)

ImmGenMaps leverages state-of-the-art spatial transcriptomics to create a comprehensive atlas of immune cells across mouse organs in space.

Combining spatial gene expression profiling with detailed protein marker analysis, ImmGenMaps goes beyond traditional methods, capturing immune cells in their natural tissue context and preserving key spatial information. This approach highlights the diversity and dynamics of immune cell populations and their integration within non-immune cell ensembles that form the sophisticated organ architectures that support life.
In its first phase, ImmGenMaps will generate high-quality datasets from 25 healthy mouse organs, establishing baseline maps for male and female specimens. Future phases will explore immune responses under various challenges, including infections, cancer, allergies, and autoimmune conditions. ImmGenMaps invites researchers worldwide to contribute their expertise and data through its open collaborative format, ensuring that the resource remains robust, versatile, and freely accessible.
Ultimately, ImmGenMaps aims to serve as a foundational tool for advancing our understanding of immunological processes and guiding innovative therapeutic strategies.
ImmGen’s OpenSource collaborative format hopes to tap into the decades-long experience of participants across the globe to design and execute this comprehensive immune cartography project. As usual, participants who contribute to the entire resource are also free to use their data for their own purposes. Do you want to participate? Do you have unique experimental models, or specialized histopathological expertise, or are you interested in novel computational strategies for data integration and data visualization strategies? Contact Us

Figure 1
Stomach
Figure 2
Colon roll
Figure 3
Colon detail
Figure 4
Colon ImmGenMaps
Figure 5
Small intestine
Figure 6
FRT pan
Figure 7
SG pan
Figure 8
TMA pan

List of participants:

Judith Agudo, Christophe Benoist, Michelle Bessiake, Maria Brbic, Brian Brown, Marco Colonna, Jack Cloud, Daniel Dwyer, Muxue Du, Lindsey Erion-Barner, Adrian Erlebacher, Sami Farhi, Anna Globig, Ananda Goldrath, Maximilian Heeg, David Hoytema, Jun Huh, Abigail Jaquish, Stephen Josefowicz, Joonsoo Kang, Brian Kim, Pallav Kosuri, Elaine Kouame, Taras Kreslavsky, Mitch Kronenberg, Sarah Lane-Reticker, Andrew Leader, Maria Lehtinen, Alex Liu, Yuening Liu, Vida Luna, Harrison Ma, Evan Macosko, Miguel Marin-Rodero, Diane Mathis, Keisha Matthew, Miriam Merad, Alexander Monell, Rachel Niec, Peter Nigrovic, Stephen Nutt, Mark Owyong, Jen Oyler-Yaniv, Alon Oyler-Yaniv, Deepshika Ramanan, Miguel Reina-Campos, Anne Schaefer, Tal Shay, Justin Shyer, Sara Sime, Bhavya Singh, Joseph Sun, Julie Tellier, Alexander Tepper, Alina Ulezko-Antonova, Chuck Vanderburg, Amy Wagers, Yebin Wang, Zhen Wang, Sunny Wu, Tong Wu, Ethan Xu, David Zemmour, Hongkui Zeng, Shanshan Zhang.

Datasets Summary

Experiment Summary Category Tissue Experiment Details Strain Genetics Sex Age Weeks Genes Profiled Proteins Profiled Cells Profiled HE