This folder contains all of the data sets described in the second edition of Physical Models of Living Systems by Philip Nelson.
For the first edition, see the "first-edition" branch of this repository.
Several of these data sets are also used in A Student's Guide to Python for Physical Modeling by Jesse M. Kinder and Philip Nelson.
Use of these data sets is subject to the terms of LICENSE.txt.
Most data sets are available in .csv, .npy, and .mat formats.
The following data sets are included.
01-HIVseries
--- Time series data for HIV infection02-Population
--- World population data, by year03-ShotNoise
--- Arrival times of photons in an avalanche photodiode04-Brownian
--- Jean Perrin's data on Brownian motion05-Clusters
--- Geographic coordinates of bombings in WWII London06-LDexpt
--- Luria and Delbruck's data on bacterial mutation07-Stocks
--- Weekly closing price of the Dow Jones08-FlowCytometry
--- Fluorescence values for immune-system cells09-COVID
--- COVID infection time series data10-BrownianTrap
--- Time series data for a particle in an optical trap11-CryoEM
--- Cryo electron microscopy data12-Photodiodeblips
--- Photodector trace data13-Vesicle
--- Electric potential in muscle tissue14-MyosinV
--- Time series data for stepping of the molecular motor myosin15-LinearFitPoisson
--- Radioactive decay data16-Bursting
--- mRNA count time series17-Colquhoun
--- Single ion channel recording18-Kinesin
--- Kinesin velocity data19-HbMb
--- Oxygen binding data for hemoglobin and myglobin20-Autoregulation
--- Effect of gene regulation on protein expression21-Epidemic
--- Measles outbreak data22-Novick
--- Induced beta-galactosidase activity in bacteria23-Superspreaders
--- Cov-2 infections attributed to individuals
The following folders are not part of the Second Edition of PMLS, but they are referenced in A Student's Guide to Python.
01HIVseries
--- Time series data for HIV infection16catphoto
--- Black and white picture of a cat, and image filters15novick
--- Induced beta-galactosidase activity in bacteria17stressFibers
--- Images of fibers in stem cells under stress
More detail can be found in the README.txt file in each folder, and the references therein.