This project leveraged single-cell RNA-sequencing (scRNA-seq) and single nucleus ATAC-sequencing (snATAC-seq) to comprehensively study gene expression and chromatin accessibility programs during mammary gland aging in mice.

Briefly, mammary glands were isolated from co-housed young adult (3 month) and older (18 month) virgin female C57BL/6J mice, which correspond to 20-30 year-old and >55 year-old humans. Gene expression and chromatin accessibility in viable, dissociated single cells were then profiled using 10X chromium scRNA-seq (n=6 replicates per age, where 3 mice are pooled per replicate; total n=47,641 cells after QC filtering) and matched snATAC-seq from half of the samples (n=3 replicates per age, 3 mice pooled per replicate; total n=27,842 cells after QC filtering ), and analyzed using standard CellRanger and Seurat pipelines. The data are made available through this interactive web portal which provides tools for querying and visualizing the data.

For more details see: Angarola BL*, Sharma S*, Katiyar N, Kang HG, Nehar-Belaid D, Park P, Gott R, Eryilmaz GN, LaBarge MA, Palucka K, Chuang JH, Korstanje R, Ucar D#, Anczukόw O# . Comprehensive single cell aging atlas of mammary tissues reveals shared epigenomic and transcriptomic signatures of aging and cancer.

For inquiries please contact olga.anczukow@jax.org and duygu.ucar@jax.org

Visualizing gene expression across scRNA-seq clusters

Comparing gene expression between young and old cells across scRNA-seq clusters