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A single chromosome 3p break initiates clear cell renal cell carcinoma evolution

ABSTRACT: We used single-cell RNA sequencing (10x Genomics) coupled with CITE-seq cell hashing (HTO) to profile and compare the transcriptomes of renal proximal tubule epithelial cells (RPTECs) after different CRISPR-Cas9 ribonucleoprotein (RNP) perturbations. Cells were treated with a non-targeting control sgRNA (sgNTC), an sgRNA targeting chromosome 3p (sg3p), or an sgRNA targeting chromosome Yq (sgYq), and harvested at Day 5 and Day 10. Hashtag-labeled samples were pooled into three 10x Chip G lanes, and gene-expression and HTO libraries were sequenced on an Illumina NovaSeq X Plus. Copy-number alterations were inferred (inferCNV) to identify cells with chromosome 3p loss, and differential gene expression was compared between 3p-loss and no-loss populations over time.

ORGANISM(S): Homo sapiens

PROVIDER: GSE336056 | GEO | 2026/09/21

REPOSITORIES: GEO

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