For Figure 2:
Figure2_data.mat
-Variable named "experimentalResults" contains structs with measurement descriptions and results (cell named “ORG”). "ORG" cell contains, ORG response (nm), high-pass filtered response (nm), amplitude spectrum (nm), frequency-axis (Hz), time-axis (s), and finally amplitude (nm) and phase of the spectrum at stimulus frequency.
-Variable "t" contains the time axis (s).
-Variables "ORG*" contain recorded ORG signals (nm) at given stimulus values.
-Variables "*Comp*" contain extracted components ("slow", "fast", "flicker") with values given in nm at different stimulus luminances.
Figure2.png - image containing plotted data
For Figure 3:
Figure3_data.mat
-Variables named "subject(1-6)" contain measurement results for different subjects. In each of the structs, there are measurement descriptions and results (cell named “ORG”). The “ORG” cell contains, response (nm), high-pass filtered response (nm), amplitude spectrum (nm), frequency-axis (Hz), time-axis (s), and finally amplitude (nm) and phase of the spectrum at stimulus frequency.
-Variable named "frequency_characteristics" contains six rows representing each subject. Two columns contain frequency values (Hz) and average amplitudes of ORG signal (nm) for each subject respectively.
-Variable "dataFit" contains fitted components.
Figure3.png - image containing plotted data
For Figure 4
Figure4_data.mat
-Variables named "subject(1-6)" contain measurement results for different subjects. Inside each of the subject's results are cells representing different depths with respect to COST (with value given from -8px to 8px with 2px step). Each of these cells contains structs with measurement descriptions and results (in a similar way to Figure 2 and Figure 3).
-Variable named "frequency_characteristics" contains six rows representing each subject. Two columns contain frequency values (Hz) and average amplitudes of ORG signal (nm) for each subject respectively. There are nine cells for each subject as the signal was calculated at 9 depths (-8px to 8px with 2px step).
Figure4.png - image containing plotted data
For Figure 5:
Files related to the manuscript Fig. 5(C) and 5(D). More specifically, it contains the following files:
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForAllMice.fig: Matlab figure file plotting individual single pulse optoretinography response curves - ∆ROS (nm) versus time from stimulus (s) – from a total of 48 datasets from five albino mice, of which 24 before (in red) and 24 after (in cyan) Sildenafil administration.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForAllMice.png: same as above in .png graphic file format.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse1.fig: Matlab figure file plotting individual single pulse optoretinography response curves - ∆ROS (nm) versus time from stimulus (s) – from a total of 10 datasets from albino mouse #1, of which 4 before (in red) and 6 after (in cyan) Sildenafil administration. Thicker plot lines highlight measurements taken at least 2 days after the thinner plot lines.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse1.png: same as above in .png graphic file format.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse2.fig: Matlab figure file plotting individual single pulse optoretinography response curves - ∆ROS (nm) versus time from stimulus (s) – from a total of 12 datasets from albino mouse #2, of which 6 before (in red) and 6 after (in cyan) Sildenafil administration. Thicker plot lines highlight measurements taken at least 2 days after the thinner plot lines.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse2.png: same as above in .png graphic file format.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse3.fig: Matlab figure file plotting individual single pulse optoretinography response curves - ∆ROS (nm) versus time from stimulus (s) – from a total of 11 datasets from albino mouse #3, of which 5 before (in red) and 6 after (in cyan) Sildenafil administration. Thicker plot lines highlight measurements taken at least 2 days after the thinner plot lines.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse3.png: same as above in .png graphic file format.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse4.fig: Matlab figure file plotting individual single pulse optoretinography response curves - ∆ROS (nm) versus time from stimulus (s) – from a total of 5 datasets from albino mouse #4, of which 3 before (in red) and 2 after (in cyan) Sildenafil administration.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse4.png: same as above in .png graphic file format.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse5.fig: Matlab figure file plotting individual single pulse optoretinography response curves - ∆ROS (nm) versus time from stimulus (s) – from a total of 10 datasets from albino mouse #5, of which 6 before (in red) and 4 after (in cyan) Sildenafil administration. Thicker plot lines highlight measurements taken at least 2 days after the thinner plot lines.
- All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForMouse5.png: same as above in .png graphic file format.
- BoxPlot_DeltaROSspeed_Before_And_AfterSildenafil_ForAllMice_ExcludingDatasets7-44-45-51.fig: Matlab figure file showing a Box plot (obtained with the boxplot Matlab function) of the ∆ROS speed (nm/s) from 44 of the 48 selected datasets from the five albino mice, before (in red) and after (in cyan) Sildenafil administration. This figure corresponds to the Manuscript Figure 5(D).
- BoxPlot_DeltaROSspeed_Before_And_AfterSildenafil_ForAllMice_ExcludingDatasets7-44-45-51.png: same as above in .png graphic file format.
- DataForFig5.mat: Matlab file, including three variables (matrices):
- TimeFromStimulusIn_s: matrix of time vectors (each containing 290 datapoints) for each of the 48 datasets (48x290 double), representing the time from the stimulus in seconds, i.e., the x axis for each of the DeltaROS_vs_time figures.
- DeltaROSin_nm: matrix of vectors (each containing 290 datapoints) representing ∆ROS values in nanometers, i.e., the y axis, for each corresponding time point of the previous matrix, for each of the 48 datasets (48x290 double).
- oplchangevstimevstimesincesildenafilv6: matrix presenting a lookup table between the first column, representing the series index, and the second column, representing the dataset index. This variable is used by the following Matlab script to display the data as in: All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForAllMice.fig
- ExtendedDataForFig5.xls: Excel spreadsheet showing the results of the numerical analysis of ∆ROS speed (nm/s) and other reliability metrics for the various datasets. The file contains the following tabs:
- AllGreenDay4toDay9: ∆ROS speed (nm/s) (D2:D59) and other reliability metrics for all 58 datasets that provided good STOC-T image quality.
- SelectedDay4toDay9Excl38to43: ∆ROS speed (nm/s) (E2:E49) and other reliability metrics for the 48 datasets that yielded viable ORG signals with properly suppressed breathing artifacts.
- SelDay4to9Excl38to43&7,44,45,51: ∆ROS speed (nm/s) (E2:E45) and other reliability metrics for the 44 datasets where the ∆ROS speed (nm/s) estimation was reliable.
- SelectedDay4to9Excl38to43Plots: ∆ROS (nm) (G2:IV49) versus time from stimulus (G1:IV1) for the 48 datasets that yielded viable ORG signals with properly suppressed breathing artifacts. Unlike the matrix DeltaROSin_nm in the DataForFig5.mat Matlab file, the number of time points in the spreadsheet was limited to 250, instead of 290.
- MatalbScript_for_All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForAllMice.m: Matlab script to display the data as in: All_Selected_DeltaROS_vs_time_Before_And_AfterSildenafil_ForAllMice.fig. It requires access to DataForFig5.mat
- MeanAndStd_DeltaROS_vs_time_Before_And_AfterSildenafil_ForAllMice.fig: Matlab figure showing rod-mediated, single-pulse, scotopic ORG recordings before (red) and after (cyan) Sildenafil administration. The centerline represents the mean and the shaded area represents +/- one standard deviation. This figure corresponds to the Manuscript Figure 5(C).
- MeanAndStd_DeltaROS_vs_time_Before_And_AfterSildenafil_ForAllMice.png: same as above in .png graphic file format.
For Figure 6
Figure6_data.xlsx
-Sheet 1 “Amplitude” contains data used for plots presented in panels 6C, 6D, and 6E.
-Sheet 2 “VEPS” contains the averaged responses (VEP) for each mouse at time 0 minutes (control without Sildenafil), and every 30 minutes up to 210 minutes after Sildenafil injection.
-Sheet 3 “Fig 6B” contains the response amplitudes for each mouse and electrode recorded every 30 minutes as in sheet 2. In addition, there are statistics calculated using the Wilcoxon test.
