Scripts and data for the manuscript "The epigenetics effects of transposable elements are not restricted to gene silencing".
- TEs with epigenetic effects data: contains table for the 2,235 polymorphic TEs analyzed
- Epigenetic effects: ad-hoc bash scripts to analyze the epigenetic effects of TEs
- Expression analyses: ad-hoc bash and R scripts to compute the z-score comparing gene expression between alleles with and without the TE insertion
- Obtain breakpoints: scripts to obtain the breakpoint coordinate for TEs absent from genomes
- Null distribution: script to select random regions of the genome that matches the location of TE insertions
- ANALYSES_EPIGENETICS.Rmd: R Markdown documents with the code used for doing analyses and creating figures
Coronado-Zamora & González (2025) The epigenetics effects of transposable elements are not restricted to gene silencing. Genome Biology.
Project: https://github.com/GonzalezLab/epigenetic-effects-transposons-dmelanogaster/