Sync thompson
Browse files- README.md +38 -0
- config.json +43 -0
- thompson.pt +3 -0
README.md
ADDED
|
@@ -0,0 +1,38 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
---
|
| 2 |
+
license: bsd-3-clause
|
| 3 |
+
library_name: pyaging
|
| 4 |
+
tags:
|
| 5 |
+
- pyaging
|
| 6 |
+
- aging-clock
|
| 7 |
+
- biology
|
| 8 |
+
- dna-methylation
|
| 9 |
+
---
|
| 10 |
+
|
| 11 |
+
# thompson
|
| 12 |
+
|
| 13 |
+
Full-lifespan multi-tissue mouse DNA-methylation clock fit by elastic net to RRBS CpG methylation across 1,147 samples from ten tissues and multiple strains; the 582-site all-CpG model estimates chronological age and detects intervention- and genotype-associated age acceleration.
|
| 14 |
+
|
| 15 |
+
| | |
|
| 16 |
+
|---|---|
|
| 17 |
+
| **Predicts** | chronological age |
|
| 18 |
+
| **Species** | Mus musculus |
|
| 19 |
+
| **Tissue** | adipose tissue, blood, cerebellum, brain cortex, heart, kidney, liver, lung, skeletal muscle, spleen |
|
| 20 |
+
| **Data type** | DNA methylation |
|
| 21 |
+
| **Model type** | elastic net regression |
|
| 22 |
+
| **Year** | 2018 |
|
| 23 |
+
|
| 24 |
+
## Use with pyaging
|
| 25 |
+
|
| 26 |
+
```python
|
| 27 |
+
import pyaging as pya
|
| 28 |
+
|
| 29 |
+
pya.pred.predict_age(adata, ["thompson"])
|
| 30 |
+
```
|
| 31 |
+
|
| 32 |
+
Browse every clock in the [pyaging Clock Catalogue](https://pyaging.readthedocs.io).
|
| 33 |
+
|
| 34 |
+
## Citation
|
| 35 |
+
|
| 36 |
+
Thompson, M. J., Chwiałkowska, K., Rubbi, L. et al. A multi-tissue full lifespan epigenetic clock for mice. Aging (Albany NY) 10, 2832–2854 (2018).
|
| 37 |
+
|
| 38 |
+
https://doi.org/10.18632/aging.101590
|
config.json
ADDED
|
@@ -0,0 +1,43 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"approved_by_author": "\u2705",
|
| 3 |
+
"citation": "Thompson, M. J., Chwia\u0142kowska, K., Rubbi, L. et al. A multi-tissue full lifespan epigenetic clock for mice. Aging (Albany NY) 10, 2832\u20132854 (2018).",
|
| 4 |
+
"citations": 236,
|
| 5 |
+
"citations_date": "2026-07-05",
|
| 6 |
+
"clock_name": "thompson",
|
| 7 |
+
"data_type": "DNA methylation",
|
| 8 |
+
"doi": "https://doi.org/10.18632/aging.101590",
|
| 9 |
+
"journal": "Aging (Albany NY)",
|
| 10 |
+
"last_author": "Matteo Pellegrini",
|
| 11 |
+
"model_type": "elastic net regression",
|
| 12 |
+
"n_features": 582,
|
| 13 |
+
"notes": "Full-lifespan multi-tissue mouse DNA-methylation clock fit by elastic net to RRBS CpG methylation across 1,147 samples from ten tissues and multiple strains; the 582-site all-CpG model estimates chronological age and detects intervention- and genotype-associated age acceleration.",
|
| 14 |
+
"platform": [
|
| 15 |
+
"RRBS"
|
| 16 |
+
],
|
| 17 |
+
"population": "mice",
|
| 18 |
+
"predicts": [
|
| 19 |
+
"chronological age"
|
| 20 |
+
],
|
| 21 |
+
"research_only": null,
|
| 22 |
+
"species": "Mus musculus",
|
| 23 |
+
"tissue": [
|
| 24 |
+
"adipose tissue",
|
| 25 |
+
"blood",
|
| 26 |
+
"cerebellum",
|
| 27 |
+
"brain cortex",
|
| 28 |
+
"heart",
|
| 29 |
+
"kidney",
|
| 30 |
+
"liver",
|
| 31 |
+
"lung",
|
| 32 |
+
"skeletal muscle",
|
| 33 |
+
"spleen"
|
| 34 |
+
],
|
| 35 |
+
"training_target": [
|
| 36 |
+
"chronological age"
|
| 37 |
+
],
|
| 38 |
+
"unit": [
|
| 39 |
+
"months"
|
| 40 |
+
],
|
| 41 |
+
"version": "v0.3.0",
|
| 42 |
+
"year": 2018
|
| 43 |
+
}
|
thompson.pt
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:810a7ac0d6bf3c9156c3a90b46969783b4f69a2546b8d8a8814c1301b25ab545
|
| 3 |
+
size 23205
|