Published June 12, 2026
| Version v1.0.1
Software
Open
Histological aging signatures for monitoring tissue-specific aging and disease
Authors/Creators
-
Abila, Ernesto1
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Buljan, Iva1
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Zheng, Yimin1
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Kleißl, Lisa1
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Klotz, Sigrid2
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Veres, Tamas1
- Weng, Zhilong
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Nackenhorst, Maja Carina2
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Kamies, Rizqah3
- Michl, Anja
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Kadri, Safwen3
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Moustafa, Samir4
- Hulla, Wolfgang
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Perkonigg, Matthias5
- Drach, Mathias
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Tschandl, Philipp
- Sterniczky, Barbara
- Heinig, Matthias
- Desadeleer, Laurens
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Wuyts, Wim6
- Vanaudenaerde, Bart
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Ceulemans, Laurens7
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Buchanan, Daniel8
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Fennell, Lochlan9, 10
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Stary, Georg2
- Tolkach, Yuri
- Wöhrer, Adelheid
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Schiller, Herbert11
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Rendeiro, André12, 1
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1.
CeMM Research Center for Molecular Medicine
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2.
Medical University of Vienna
- 3. Helmholtz Zentrum München
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4.
University of Vienna
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5.
Innsbruck Medical University
- 6. University Hospitals Leuven
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7.
Universitair Ziekenhuis Leuven
- 8. The University of Melbourne
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9.
Monash University
- 10. QIMR BERGHOFER
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11.
Helmholtz Munich
- 12. Ludwig Boltzmann Institute for Network Medicine
Description
tissue-clocks v1.0.0
Source code release accompanying the Nature Medicine manuscript:
Histological aging signatures enable inference of tissue-specific disease associations from blood
Contents
- Full analysis pipeline for GTEx histopathology aging clocks
- Revision analyses: foundation models, external cohort validation, ICC reproducibility, Bland-Altman calibration, GNN models, DNA methylation comparison
- Didactic walkthrough notebook:
src/revision/tissue_clock_walkthrough.ipynb
License
PolyForm Noncommercial License 1.0.0 — see LICENSE.
Related repositories
- RendeiroLab/wsi — WSI preprocessing library
- RendeiroLab/LazySlide — whole-slide image analysis framework
Data
- GTEx WSI and expression data: GTEx Portal
- GTEx phenotypes: dbGaP phs000424.v9.p2
- Fine-tuning datasets: Zenodo 10.5281/zenodo.13330659
Notes
If you use this software, please cite it.
Files
rendeirolab/tissue-clocks-v1.0.1.zip
Files
(2.2 MB)
| Name | Size | Download all |
|---|---|---|
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md5:0fd9dd31a99043615e567b437818639b
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Additional details
Related works
- Is supplement to
- Software: https://github.com/rendeirolab/tissue-clocks/tree/v1.0.1 (URL)
Funding
Software
- Repository URL
- https://github.com/rendeirolab/tissue-clocks
- Programming language
- Python , Jupyter Notebook
- Development Status
- Concept