Accompanying python and R code for The conserved genetic program of male germ cells uncovers ancient origins of human infertility.

• Rion Brattig Correia, Joana M. Almeida, Margot Wyrwoll, Irene Julca, Daniel Sobral, Chandra S. Misra, Leonardo G. Guilgur, Hans Schuppe, Neide Silva, Pedro Prudêncio, Ana Nóvoa, Ana S. Leocádio, Joana Bom, Moises Mallo, Sabine Kliesch, Marek Mutwil, Luis M. Rocha, Frank Tüttelmann, Jörg D. Becker, Paulo Navarro-Costa [2022]. "An old transcriptional program in male germ cells uncovers new causes of human infertility". Submitted. bioRxiv: 10.1101/2022.03.02.482557

Folders identify different portions of the project, each containing additional details.

• 01-diff-gene-exp: Differentially Expressed Gene Analysis based on RNAseq gene expression levels.
• 02-core_genes: Defining evolutionary conserved (core) genes among Fruit fly, Mouse and Humans.
• 03-screened-data: Match wet-lab experimental results with the core and network genes.
• 04-network: Network Science analysis, including orthoBackbone computation.
• 05-data-analysis: Data analysis, simulations, machine learning experiments, and general plotting.
• data: placeholders for downloaded third-party data.
• images: inhouse designed images used in the project.
• networkbrowser: Frontend of the Meiotic Navigator (PHP, HTML+CSS coding).

This code repository is maintained by Rion Brattig Correia in collaboration with Paulo Navarro Costa.