The Distribution of Cellular Turnover in the Human Body
This repository contains all source data and code for the analysis found in "The Distribution of Cellular Turnover in the Human Body" by Ron Sender and Ron Milo (Nature Medicine, 2021).
Most of the files are given per tissue:
1. The source data is provided in .xlsx file
2. The source code is given in a .ipynb file
In addition two general notebooks: one contains utility functions and the other a code for running all the notebooks at ones. The results are saved in another .xlsx file, a spreadsheet for each cell type.
An index for the structure of this repository is given below:
Utility and summary:
-
Utility_Functions.ipynb| code for defining utility functions for the calculations. For example the definition of a class that contains database of the properties of cell types of a given tissue. -
Results_summary.ipynb| code for running the entire analysis, by calling the various notebooks. -
Summary.xlsx| in this excel file, the results are being saved. Each cell type in its unique spreadsheet.
Tissue's data and analysis:
-
Adipocytes.ipynb| code for estimating the number and turnover rates of adipocytes (fat cells) -
Adipocytes_data.xlsx| curated data from the literature for estimating the number and turnover rates of adipocytes (fat cells) -
Brain_cells.ipynb| code for estimating the number and turnover rates of brain cells: neurons and glial cells -
Brain_data.xlsx| curated data from the literature for estimating the number and turnover rates of brain cells: neurons and glial cells -
Cardiomyocytes.ipynb| code for estimating the number and turnover rates of heart cells, mainly cardiomyocytes -
Cardiomyocytes_data.xlsx| curated data from the literature for estimating the number and turnover rates of heart cells, mainly cardiomyocytes -
Endothelial_cells.ipynb| code for estimating the number and turnover rates of endothelial cells -
Endothelial_cells_data.xlsx| curated data from the literature for estimating the number and turnover rates of endothelial cells -
Erythrocytes.ipynb| code for estimating the number and turnover rates of erythrocytes (RBC) -
RBC_data.xlsx| curated data from the literature for estimating the number and turnover rates of erythrocytes (RBC) -
GIT_Epithelial_cells.ipynb| code for estimating the number and turnover rates of the epithelial cells of the GI tract (stomach, small and large intestine) -
GIT_epithel_data.xlsx| curated data from the literature for estimating the number and turnover rates of the epithelial cells of the GI tract (stomach, small and large intestine) -
Liver_cells.ipynb| code for estimating the number and turnover rates of liver cells -
Liver_cells_data.xlsx| curated data from the literature for estimating the number and turnover rates of liver cells -
Lung_cells.ipynb| code for estimating the number and turnover rates of lung cells -
Lung_cells_data.xlsx| curated data from the literature for estimating the number and turnover rates of lung cells -
Lymphocytes.ipynb| code for estimating the number and turnover rates of the lymphoctes -
Lymphocytes_data.xlsx| curated data from the literature for estimating the number and turnover of the lymphoctes -
Monocytes.ipynb| code for estimating the number and turnover rates of the monocytes -
Monocytes_data.xlsx| curated data from the literature for estimating the number and turnover of the monocytes -
Myocytes.ipynb| code for estimating the number and turnover rates of the muscle cells -
Myocytes_data.xlsx| curated data from the literature for estimating the number and turnover of the muscle cells -
Neutrophils.ipynb| code for estimating the number and turnover rates of the neutrophils -
Neutrophils_data.xlsx| curated data from the literature for estimating the number and turnover of the neutrophils -
Skin_cells.ipynb| code for estimating the number and turnover rates of the skin cells (epidermal and deraml cells) -
Skin_cells_data.xlsx| curated data from the literature for estimating the number and turnover of the skin cells (epidermal and deraml cells)