Decoding cell division history and lineage-resolved phenotypic patterns from single-cell barcode and transcriptomic data.

FateScape accurately reconstructs cell division trees and reveals depth-resolved phenotypic patterns with high robustness in single-cell lineage and transcriptomic data.

• Why it matters: Understanding cellular diversity during development requires detailed lineage histories and phenotypic mapping, which are challenging to decode from complex single-cell data.
• What they did: FateScape integrates lineage barcodes and transcriptomic profiles using statistical methods, including state-lineage decomposition and barcode-guided subtree analysis, validated through simulations and biological datasets.
• The result: The framework successfully recovers lineage topology and uncovers spatial distribution patterns of cell states in C. elegans and mouse embryos, enabling insights into developmental processes and cell fate dynamics.