Gene network topology drives the mutational landscape of gene expression

Regulatory mutations, coding sequence variations, and gene deletions and duplications are generally expected to have qualitatively different effects on fitness during adaptation. We aim to ground this expectation within a theoretical framework using evolutionary simulations of gene regulatory networks (GRNs) controlling the expression of fitness-related genes. We examined the distribution of fitness effects as a function of the type of mutation and the topology of the gene network. Contrary to our expectation, the GRN topology had more influence on the effect of mutations than the type of mutation itself. In particular, the topology conditioned (i) the speed of adaptation, (ii) the distribution of fitness effects, and (iii) the degree of pleiotropy which acts as explanatory factor for all mutation types. All mutations had the potential to participate in adaptation, although their propensity to generate beneficial variants differed according to the network topology. In scale-free network..., , # Data from: Gene network topology drives the mutational landscape of gene expression

## Project organization

The project repository contains the following directories:

| Directory | Location |
| ------------------- | ------------------------------ |
| Extracted\_data | Dryad |
| figures | *empty* |
| movies | *empty* |
| SIMULATIONS | Dryad |
| src | Zenodo (Software Related work) |
| *various R scripts* | Zenodo (Software Related work) |

It is necessary to have both the code (from Zenodo) and simulation data in the same directory to generate the figures. Simulation data can be either downloaded from Dryad, or re-generated from the code (takes several days depending on the hardware).

## Simulation data in Dryad

This Dryad repository contains a zip file (GeneRation_Data_Analysis_pack.zip) with two direc...,