Replication Data for: "Single-cell T-cell Receptor sequencing of paired human atherosclerotic plaques and blood reveals autoimmune-like features of expanded effector T-cells."

Finally, we integrated a published scTCRseq dataset of the autoimmune disease psoriatic arthritis to assess commonalities and differences between the two diseases. In this repository we provide the raw atherosclerosis TCRseq data, the bulk sequencing data, and the code that was used for the analysis of the data. GitHub A link to the public GitHub repository: link.

This contains all scripts used for the data, which is pseudonymized and shared here. Athero-Express Biobank Study The AE started in 2002 and now includes over 3,500 patients who underwent surgery to remove atherosclerotic plaques (endarterectomy) from one (or more) of their major arteries (majority carotids and femorals); this is further described here. The study design and staining protocols are described by Verhoeven et al. Additional data Additional clinical data is available upon discussion and signing a Data Sharing Agreement (see Terms of Access).

PlaqView Please note, that we will also integrate these data through PlaqView, but they are not available yet. In collaboration with the millerlab.org from the University of Virginia (USA) we created PlaqView.com. You can query any gene of interest in many carotid-plaque datasets, including ours.

From our experience we know that usually this suffices most research questions and prevents the lengthy process of obtaining these data through a DSA.