New transcriptomic methods to investigate cardiovascular, metabolic and autoimmune disease
Dnr:
NAISS 2023/5-567
Type:
NAISS Medium Compute
Principal Investigator:
Joan Camunas Soler
Affiliation:
Göteborgs universitet
Start Date:
2024-01-31
End Date:
2025-02-01
Primary Classification:
10610: Bioinformatics and Systems Biology (methods development to be 10203)
Allocation
- Dardel-GPU at PDC: 300 GPU-h/month
- Rackham at UPPMAX: 100 x 1000 core-h/month
- Dardel at PDC: 50 x 1000 core-h/month
Abstract
In this project, we aim to establish a robust computational infrastructure for the
analysis of spatial transcriptomics data from cardiac tissue biopsies and the investigation
of viral genomes in cell-free RNA scleroderma samples. The analysis involves optimizing
computational methodologies, including the use of spatial transcriptomics data from
healthy donors to ensure data quality and integrity. We will employ Snakemake/Nextflow
pipelines through Docker to facilitate reproducibility and scalability.