Medical Contributed Datasets and Analyses

Single cell RNA sequencing of femur bone marrow cells from the NZBWF1 systemic lupus erythematosus mouse model and its progenitors.
Database (accession): NCBI GEO (GSE174728)
Summary:

Systemic lupus erythematosus (SLE) is an autoimmune disorder characterized by failure of self-tolerance mechanisms and the resultant production of autoreactive antibodies. The NZBWF1 mouse spontaneously develops a lupus-like syndrome and is used as model of SLE. The NZBWF1 model represents the F1 generation of a cross between New Zealand Black (NZB) and New Zealand White (NZW) mice. In this study we investigated the model and its progenitors (NZB, NZW) gene expression with single cell RNA sequencing on cells isolated from bone marrow and processed with the 10X Chromium.\

Overall design:

Cells isolated from femur bone marrow from female 9 - 10 weeks old mice (n=3) for each strain (n=3; NZBWF1, NZB, NZW) was prepared on the 10x Genomics Chromium Single Cell controller using the 10x Chromium Single Cell 3’ v3.1 Reagent Kit (10x Genomics Product Code 1000268).\

Contributor(s): Younes ST, Showmaker KC, Johnson AC, Garrett MR, Ryan MJ
Citation(s): Younes ST, Showmaker K, Johnson AC, Garrett MR et al. Single cell RNA sequencing reveals ferritin as a key mediator of autoimmune pre-disposition in a mouse model of systemic lupus erythematosus. Sci Rep 2021 Dec 20;11(1):24245. PMID: 34930978 DOI:doi.org/10.1038/s41598-021-03649-2

Whole genome sequencing and novel candidate genes for CAKUT and altered nephrogenesis in the HSRA rat.
Database (accession): NCBI BioProject (PRJNA574594)
Summary: Whole genome resequencing and variant analysis of CAKUT related genes in the HSRA model.
Citation(s): Showmaker KC, Cobb M, Johnson AC, Garret MR. (2020) Whole Genome Sequencing and Novel Candidate Genes for CAKUT and Altered Nephrogenesis in the HSRA Rat. Physiological Genomics PMID: 31841396 DOI:doi.org/10.1152/physiolgenomics.00112.2019