POSTERS
AACR 2026 | poster #7243
In situ, direct single-cell visualization of 3D genome architecture in ER+ and HER2+ breast cancer cell lines using the PaintScape™ System
highlights
PaintScape enabled direct in situ visualization of 3D genome structural genotype in single breast cancer (BC) cells revealing potential mechanisms of dysregulation
PaintScape characterized and directly visualized in situ single cell genome-wide instability revealing intratumoral heterogeneity (ITH) across ER+ and HER2+ BC cells
PaintScape revealed distinct structural genotypes between individual single cells from different cell sub-popluations
Chr8p, Chr17q and Chr20q focal amplifications in ER+ BC cells
Chr5p, Chr8q, Chr11q and Chr20q amplifications in HER2+ BC cells
Frequent loss of CDKN2A in ER+ BC cells
Cell to cell variation in copy number of amplified targets causing ITH
PaintScape identified and visualized heterogeneous spatial distribution of amplified targets in situ in single breast cancer cells
Unique BRIP1 ecDNA amplifications in ER+ MCF7 cells
CCND1 inside and outside of Chr11 Rg in UCD12 and UCD65
PaintScape identified and directly visualized unique inter-chromosomal interactions involving DEREs in sub-set of ER+ BC cells
PaintScape directly visualized disruptions in TAD like structures in situ in single BC cells potentially driving dysregulated gene expression
PaintScape identified and directly visualized simultaneous 3D proximity of multi-loci interactions of breast cancer relevant genomic regions in situ in single BC cells