Filtering cells with high mitochondrial content depletes viable metabolically altered malignant cell populations in cancer single-cell studies

Abstract excerpt

BACKGROUND: Single-cell transcriptomics has transformed our understanding of cellular diversity, yet noise from technical artifacts and low-quality cells can obscure key biological signals. A common practice is filtering out cells with a high percentage of mitochondrial RNA counts (pctMT), typically indicative of cell death. However, commonly used filtering thresholds, primarily derived from studies on healthy...

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