SUPR
BrodinLab mRNA/ATAC-seq analysis
Dnr:

sens2020530

Type:

SNIC SENS

Principal Investigator:

Petter Brodin

Affiliation:

Karolinska Institutet

Start Date:

2020-03-26

End Date:

2025-06-01

Primary Classification:

10605: Immunology (medical to be 30110 and agricultural to be 40302)

Allocation

Abstract

To investigate differential expression and gene annotation from newborn children as well as adults with given conditions by processing mRNA-sequencing data with pseudoaligner (Kallisto). As well as ATAC-sequencing involving pre alignment QC, read alignment to reference genome, and post-alignment QC and processing. The integrative ATAC-seq pipeline is needed for analysis of peak, motif, nucleosome, and TF footprint. The data stored as stated above are all human sequencing data ranging from newborns to adults with varying conditions, which is sensitive personal data due to the fact RNA-sequencing from human samples will be stored and processed here.