Preprint: CHASM detects chromosomal mosaicism in single cells of aging tissues
Our collaborative preprint with the Zhang lab is now on bioRxiv! Led by Xinyi (Emilia) Chen with Wilson lab PhD candidate Gary Wang, High-Specificity Detection of Chromosomal Mosaicism Reveals Cell-Type-Specific Genomic Alteration Patterns in Aging Tissues introduces CHASM, a method that detects chromosomal copy number alterations from single-cell ATAC-seq data.
In 99 human kidney samples, CHASM finds mosaic chromosomal alterations enriched in injury-associated VCAM1-high proximal tubule cells. It also detects the age-associated emergence of alterations in cancer-relevant regions, including chromosome 3 and chromosome 7, in ostensibly normal cells.