Influence of Yokukansan on refractive index of neuroblastoma cells - dataset

This dataset contains 3 sets with files connected to holographic tomography (HT), fluorescence microscopy (FM) and Raman micro-spectroscopy (RmS) measurements. All measurements are from experiment on SH-SY5Y neuroblastoma cells with treatement of diferent doses of Yokukansan (YKS - Chinses herbal medicine herb). Measurements were carried out in Nencki Institute of Experimental Biology and University of Warsaw. 

For HT:
All files are *.mat files

HT_3D_RI - in the file there are values of RI of cells (named in order: "RI3D_DoseTime" for ex. "RI3D_1mg25h") 
HT_LD_volumes - in the file, there are values of LD volumes and whole cell volumes for cells (named in order: "LD_DoseTime" for ex. "LD_1mg25h")

For FM:
File is an *.xlsx

In the file there is a spreadsheet with data of mean intensity of Hoechst staining signal in cells measured with FM. 
There are results from 3 repetition of the experiment (Day 1, 2, 3). In one experiment there were measurements of 8 doses (0,5, 1, 2, 4, 5, 6, 7, 8, mg/ml) in 4 time points (after 24h, 48h, 72h, 6 days). There is also control measurement values for each day.

For RmS:
There are three *.npy files and one *.txt

*.npy files containing the raw hyperspectral cube of the SH-SY5Y neuroblastoma cells in the form of the numpy three-dimensional array (named in order: "RmS_DoseTime" for ex. "RmS_4mg24h"). Two first dimensions correspond to the spatial position of the recorded spectra and the last one contains intensities for the Raman shift range. The measurement was performed with spatial resolution of 0.5 µm. Information about the Raman shift values for which the spectra were recorded can be found in the Raman_shift_values.txt file. 

Code example:
import numpy as np
hypespectral_cube = np.load('control.npy')   # Loading the data
R_shifts = np.loadtxt('Raman_shift_values.txt') # vector of Raman shifts
single_spectrum = hypespectral_cube[x,y,:] # gives Raman intensity recorded at x*0.5 µm, y*0.5 µm position. 
intensity_map = hypespectral_cube[:,:,Rshift_index] # gives the intensity image for the specific Raman shift value defined by R_shifts[Rshift_index]