The transcriptome of aging Drosophila melanogaster photoreceptors was profiled using RNA-seq of photoreceptor nuclear RNA. This dataset contains the original microscopy images, western blotting images and qPCR data used to generate the figures presented in Hall et al. 2017 (BMC Genomics). It also contains all R scripts used for analysis and the sequence motif files generated by HOMER (html and motif files). Data used to generate survival curves and phototaxis assay box plots are provided in csv files. Detailed protocol files are provided for immunostaining adult retinas and nuclei immunoprecipitation from adult heads.
Hall, H. et al. Transcriptome profiling of aging Drosophila photoreceptors reveals gene expression trends that correlate with visual senescence. BMC Genomics 18, 894 (2017). https://doi.org/10.1186/s12864-017-4304-3.
Cite this work
Researchers should cite this work as follows:
- Hall, H., Medina, P. S., Cooper, D. A., Escobedo, S. E., Rounds, J., Brennan, K. J., Vincent, C., Miura, P., Doerge, R. W., Weake, V. M. (2017). Transcriptome profiling of aging Drosophila photoreceptors reveals gene expression trends that correlate with visual senescence - Supporting data for Hall et al. (2017). Purdue University Research Repository. doi:10.4231/R7736P29
Confocal microscopy images (.nd2, .tif) can be opened using ImageJ or similar software.
qPCR data is provided in Bio-Rad CFX Manager software format (.pcrd) and exported qPCR data as .csv files.
Western blots data are provided as tif or .scn files (BioRad ImageLab software).
Survival curve, RNA yield and phototaxis assay data are summarized as .csv files.
All scripts used for analysis are provided as .R files and can be opened using RStudio or similar software. Initial mapping and read counts were generated using the provided scripts in the mapping file. All other analyses were performed using R.
The output files from the HOMER motif analysis are provided as .html files and .motif files, which can be opened using a standard browser and text editor.
Bio-Rad CFX software is available for download at: http://en.freedownloadmanager.org/Windows-PC/Bio-Rad-CFX-Manager.html
Bio-Rad ImageLab software is available for download at: https://en.freedownloadmanager.org/Windows-PC/Image-Lab-Software.html
The Weake lab
This publication belongs to the The Weake lab group.