Transcriptome profiling of aging Drosophila photoreceptors reveals gene expression trends that correlate with visual senescence - Supporting data for Hall et al. (2017)

Listed in Datasets publication by group The Weake lab

By Hana Hall1, Patrick Medina2, Daphne A. Cooper3, Spencer E. Escobedo1, Jeremiah Rounds2, Kaelan J. Brennan1, Christopher Vincent2, Pedro Miura3, Rebecca Doerge4, Vikki Weake5

1. Purdue University, Department of Biochemistry 2. Purdue University, Department of Statistics 3. University of Nevada, Department of Biology 4. Purdue University, College of Science, Department of Statistics 5. Purdue University, College of Agriculture

Supporting and raw data for Figures 1 - 5 and supplemental figures from Hall et al. (2017) Transcriptome profiling of aging Drosophila photoreceptors reveals gene expression trends that correlate with visual senescence. BMC Genomics.

Additional materials available

Version 1.0 - published on 16 Nov 2017 doi:10.4231/R7736P29 - cite this Archived on 11 Dec 2017

Licensed under CC0 1.0 Universal

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Description

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.

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File Information:

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

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