Researchers at Helmholtz Munich, Ludwig
Maximilians University Munich (LMU), and several partner institutions
have created an artificial intelligence (AI) system capable of mapping
disease-related changes throughout an entire mouse body at
cellular-level detail. Using the new platform, known as MouseMapper, the
team discovered widespread inflammation and previously unknown nerve
damage linked to obesity.
The study also identified similar
molecular patterns in human tissue, suggesting that important aspects of
obesity-related nerve damage may occur in both mice and people. The
findings were published in the journal Nature.
Obesity is known to affect much more than body weight and metabolism.
It can alter immune activity, disrupt nerve structures, and reshape
tissues throughout the body, increasing the risk of conditions such as
type 2 diabetes, cardiovascular disease, stroke, neuropathy, and cancer.
Despite these widespread effects, scientists have lacked tools capable
of studying disease-related changes across an entire intact body in high
detail.
To address that challenge, a research team led by Prof. Ali Ertürk,
Director of the Institute for Biological Intelligence (iBIO) at
Helmholtz Munich and Professor at LMU, developed MouseMapper. The AI
framework uses foundation-model-based deep learning algorithms to
analyze massive whole-body imaging datasets.
The system can automatically identify and segment 31 organs and
tissue types while also mapping nerves and immune cells throughout the
body. This allows researchers to examine how diseases affect multiple
organ systems at the same time in intact mice.
"MouseMapper is built on a foundation model, which means it
generalizes far beyond the data it was originally trained on," says Ying
Chen, co-first author of the study.
Transparent Mice and Whole-Body Imaging
To build the body maps, researchers first tagged nerves and immune
cells in mice using fluorescent markers that glow under a microscope.
They then used tissue-clearing methods to make the mice transparent
while preserving the fluorescent signals, allowing scientists to see
deep inside the body without cutting tissues apart.
Next, the team used advanced light-sheet microscopy to capture
detailed three-dimensional images of entire mice. The process generated
enormous datasets containing tens of millions of cellular structures
from organs and tissues across the body.
MouseMapper then analyzed the images automatically, identifying
anatomical regions, nerve networks, and immune-cell clusters throughout
the animals.
This approach allowed the
researchers to pinpoint exactly where inflammation and tissue damage
appeared in organs such as fat tissue, muscle, liver, and peripheral
nerves. Unlike earlier methods, scientists did not need to choose
specific regions to study beforehand.
Obesity Linked to Facial Nerve Damage
To explore how obesity changes the body, the researchers fed mice a
high-fat diet that produced obesity and metabolic problems similar to
those seen in humans.
Using MouseMapper, the team found widespread alterations in
immune-cell organization and nerve structures across the body. One of
the most surprising discoveries involved the trigeminal nerve, a major
facial nerve responsible for facial sensation and certain motor
functions.
In obese mice, these sensory nerves showed a major reduction in
branches and nerve endings, suggesting impaired nerve function.
Behavioral tests supported that conclusion, showing that obese mice were
less responsive to sensory stimulation compared to lean mice.
The researchers then focused on the trigeminal ganglion, which
contains the cell bodies of facial sensory neurons. Through spatial
proteomics analysis, they identified molecular changes linked to
inflammation and nerve remodeling.
Importantly, many of the same molecular signatures were also found in
trigeminal tissue from people with obesity. This suggests that the
nerve-related changes observed in mice may also occur in humans.
"We revealed previously unknown structural and molecular changes in
the trigeminal ganglion and its facial branches, and the same molecular
signature was conserved in human tissue. This kind of finding simply
cannot emerge from studying one organ at a time," says Dr. Doris
Kaltenecker, senior scientist at the Institute for Diabetes and Cancer
(IDC) at Helmholtz Munich and first author of the study.
A New Tool for Studying Complex Diseases
The researchers believe MouseMapper could become an important tool
for studying diseases that affect many organ systems simultaneously,
including diabetes, cancer, neurodegenerative diseases, and autoimmune
disorders.
Unlike earlier approaches focused
on individual tissues or organs, MouseMapper provides an integrated
whole-body analysis system that can identify disease hotspots throughout
an organism.
The team has also made the whole-body datasets publicly available
online so researchers around the world can explore obesity-related
changes across organs and tissues.
"Our goal is to create a comprehensive framework for understanding
how diseases affect the body as an interconnected system," says Ali
Ertürk. "Our long-term vision is to build truly realistic digital twins
of mice in health and disease: cell-level atlases that we can query,
perturb and screen in silico computationally. That would let us pinpoint
the earliest changes a disease causes, design interventions to prevent
them, and accelerate the discovery of new treatments while reducing the
number of physical experiments we need to run."
The work was supported by the European Research Council
(Consolidator Grant CALVARIA to A. Ertürk; grant 949017 to M. Rohm), the
German Research Foundation (DFG) under Germany's Excellence Strategy
within the Munich Cluster for Systems Neurology (SyNergy, ID 390857198,
EXC 2145), DFG SFB 1052 (A9) and TR 296 (P03), the Collaborative
Research Centre CRC 1744, the German Federal Ministry of Education and
Research (NATON collaboration, 01KX2121, and HIVacToGC), the Vascular
Dementia Research Foundation, the Nomis Heart Atlas Project Grant (Nomis
Foundation), the Else-Kröner-Fresenius-Stiftung, the
Edith-Haberland-Wagner Stiftung, the Helmut Horten Foundation, the EFSD
and Novo Nordisk A/S Programme for Diabetes Research in Europe (to D.
Kaltenecker), and the China Scholarship Council (to Y. Chen).
Journal Reference:
- Doris Kaltenecker, Izabela Horvath, Rami Al-Maskari, Ying Chen,
Zeynep Ilgin Kolabas, Luciano Hoeher, Mihail Todorov, David-Paul Minde,
Saketh Kapoor, Sena Gül Turhan, Louis B. Kuemmerle, Hanno Steinke, Tim
Wohlgemuth, Mayar Ali, Florian Kofler, Pauline Morigny, Julia Geppert,
Denise Jeridi, Bastian Wittmann, Jie Luo, Suprosanna Shit, Carolina
Cigankova, Victor Miro Kolenic, Nilsu Gür, Eren Aydeniz, Alara Yücecan,
Melissa Ertürk, Laurent H. A. Simons, Chenchen Pan, Marie Piraud, Daniel
Rueckert, Maria Rohm, Farida Hellal, Markus Elsner, Harsharan Singh
Bhatia, Ingo Bechmann, Bjoern H. Menze, Stephan Herzig, Johannes
Christian Paetzold, Mauricio Berriel Diaz, Ali Ertürk. A deep-learning framework reveals whole-body perturbations at cell level. Nature, 2026; DOI: 10.1038/s41586-026-10535-2
Courtesy:
Helmholtz Munich (GmbH). "New AI body map reveals obesity’s hidden
attack on facial nerves." ScienceDaily. ScienceDaily, 23 May 2026.
<www.sciencedaily.com/releases/2026/05/260522023308.htm>.