Research data and scripts for manuscript "Beyond Lux: Methods for Species and Photoreceptor-Specific Quantification of Ambient Light for Mammals"

These files contain the raw data, analysis and scripts used to create the figures for the paper: Beyond Lux: Methods for Species and Photoreceptor-Specific Quantification of Ambient Light for Mammals

Figure 1 Data - Mammalian melanopsin spectral sensitivities

Raw & normalised cell response data:

• Figure 1 - cell responses & lmax.xlsx

lmax fitting script:

• Opsin_Fit-README.md
• opsin-receptor-fitting-analysis.Rproj
• 1.extract_and_transform.R
• 2.fitting_procedure.R
• 3.fig_bootstrap_results.R
• 4.fig_RSS_per_lmax.R
• 5.sigmoind_fits_plots.R
• calc_sum_log_photons_gov.R
• create_govardovskii_template.R
• lmax_based_5p_fitting.R
• power_to_photons.R
• responses.xlsx
• spectra.xlsx

Figure 2 Data - Cross-species light dosimeter validation

• Figure 2 - ReadMe.txt

Functions:

• plotspecs.m
• plotvalidation.m
• calculateerrors.m

Workspaces (Used by functions above):

• calibration.mat
• validation.mat

Figure 3 Data - Irradiance response curves for circadian phase shifting in C57 wild-type mouse

• Figure 3 - raw data.xlsx

Figure 4 Data - Cross-species α-opic EDIs across different light sources

• Figure 4 - raw data.xlsx
• Figure 4 - SolarAngle.R
• Figure 4 - SolarAngle.Rdata

Supplementary Figure 1 - Pre-Receptoral Filtering Data

• Pre_R_Filter-Cornea-1-Norm_cornea_trans_data.csv
• Pre_R_Filter-Cornea-2-Transf_Norm_Spline_Norm_cornea_trans_data.csv
• Pre_R_Filter-Cornea-2-Transf_Norm_SplineCubic_Norm_cornea_trans_data.csv
• Pre_R_Filter-Cornea-3-cornea.trans.data.csv
• Pre_R_Filter-Lens-1-Norm_lens_trans_data.csv
• Pre_R_Filter-Lens-2-Transf_Norm_Spline_Norm_lens_trans_data.csv
• Pre_R_Filter-Lens-2-Transf_Norm_SplineCubic_Norm_lens_trans_data.csv
• Pre_R_Filter-Lens-3-lens.trans.data.csv
• Pre_R_Filter-Vitreous-1-Norm_vitreous_trans_data.csv
• Pre_R_Filter-Vitreous-2-Transf_Norm_Spline_Norm_vitreous_trans_data.csv
• Pre_R_Filter-Vitreous-2-Transf_Norm_SplineCubic_Norm_vitreous_trans_data.csv
• Pre_R_Filter-Vitreous-3-vitreous.trans.data.csv