"Ancient DNA and paleoproteomic analysis on Roman Imperial-era individuals from Histria, Romania"

Overview

This repository contains the datasets, analysis scripts, and results associated with the article:
Ancient DNA and paleoproteomic analysis on Roman Imperial-era individuals from Histria, Romania

Citation

If you use this dataset or scripts, please cite the article:
Wright, S. L. et al. Ancient DNA and paleoproteomic analysis on Roman Imperial-era individuals from Histria, Romania. Journal of Archaeological Science: Reports 56, 104510 (2024).

Repository Structure

• results/ – Contains processed data, summary statistics, and visualizations used in the publication.
• scripts/ – R and Python scripts used for analysis, including data processing, statistical tests, and visualization.
• README.md – Overview of the repository and how to use the files.

Data Description

The dataset includes oral microbiome sequencing data for individuals who were buried in present-day Romania.
Details on sample collection, processing, and sequencing methods are available in the article.

How to Use the Scripts

Requirements

Ensure you have the following dependencies installed before running the scripts:

• R (version ≥ 4.0)
• Python (version ≥ 3.8)
• Required R packages: phyloseq, vegan, ggplot2, DESeq2, qiime2R, compositions
• Required Python packages: pandas, numpy, scikit-learn, seaborn

Data availability

The proteomic data are publicly available on MassIVE (accession no. MSV000093976) and Zenodo (https://doi.org/10.5281/zenodo.10551784). The raw sequencing data can be found on NCBI SRA database under the project PRJNA70418.