Structure Before Function: Comparative Genome Analysis Reveals Stable Species-specific Organization

This repository contains the data and code supporting the study
“Structure Before Function: Comparative Genome Analysis Reveals Stable Species-specific Organization.”

The dataset presents genome-wide structural summaries derived from publicly available reference genomes of nine species:
human, chimpanzee, bonobo, gorilla, orangutan, dog, wolf, horse, and donkey.

Rather than focusing on gene annotation or functional interpretation, this work analyzes genomic sequences using an annotation-free, windowed statistical representation.
The aim is to characterize large-scale organizational patterns across entire genomes, including regions commonly classified as non-coding, repetitive, or low-complexity.

The results demonstrate that such regions exhibit stable, species-specific structural signatures when analyzed at a genome-wide scale.
These findings suggest that genome organization itself constitutes a meaningful descriptive layer, complementary to but distinct from local gene-centric functional analysis.

This repository includes:

• A Python implementation used to generate windowed genome representations and summary statistics.

• Per-species output files containing window-level measurements, detected outliers, and aggregated structural summaries.

• Documentation describing data provenance, analysis scope, and reproducibility considerations.

No claims are made regarding biological function, evolutionary mechanism, or phenotypic causality.
The materials are intended to support structural analysis and comparative interpretation at the level of genome-wide organization.

The dataset is provided to ensure transparency, reproducibility, and reuse in related studies exploring statistical structure, complexity, and organization in biological sequences.