3D genome structural alterations in biological pathway genes drive the progression of cells from normal epithelium to metastatic cancer
PaintScape™ directly visualized and characterized in situ structural and conformational changes of oncogenic pathway genes in cell lines from different stages of breast cancer (BC) progression
highlights
PaintScape direct 3D genome visualization identified and visualized single cell and cell sub-populations with ecDNA containing key cell cycle and DNA repair pathway gene regions in HER2+ breast cancer cell lines
TERT and CCND1 gene regions (in HCC 1954)
RAD21 gene regions (in both HCC 1954 and SKBR3)
PaintScape identified and visualized simultaneous proximity of multi-loci interactions involving key oncogenes in single breast cancer cells
PaintScape identified interacting hubs of gene clusters:
CCND1, TERT, and RAD21 exclusively in HCC 1954
ATR, RAD21 gene clusters, and STAT3-BRCA1 region in SKBR3
PaintScape identified signatures of structural-variation-induced 3D genome architecture alterations linked to dysregulated gene expression
PaintScape identified and visualized 3D folding of oncogenic TADs and disruption of TAD boundaries in single cells in different breast cancer cell lines
