AI Article Synopsis
- This chapter focuses on using lineage barcodes, which are measurements of cell evolution through mutations, to study single cells' development and fate changes.
- It presents Quantitative Fate Mapping (QFM) and its computational tools, such as the Phylotime model for cell phylogeny and the ICE-FASE algorithm for analyzing progenitor cells.
- The importance of proper sampling for interpreting results is highlighted, offering a comprehensive framework for understanding how cell fates evolve over time.
Article Abstract
Measurements of cell phylogeny based on natural or induced mutations, known as lineage barcodes, in conjunction with molecular phenotype have become increasingly feasible for a large number of single cells. In this chapter, we delve into Quantitative Fate Mapping (QFM) and its computational pipeline, which enables the interrogation of the dynamics of progenitor cells and their fate restriction during development. The methods described here include inferring cell phylogeny with the Phylotime model, and reconstructing progenitor state hierarchy, commitment time, population size, and commitment bias with the ICE-FASE algorithm. Evaluation of adequate sampling based on progenitor state coverage statistics is emphasized for interpreting the QFM results. Overall, this chapter describes a general framework for characterizing the dynamics of cell fate changes using lineage barcoding data.
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| http://dx.doi.org/10.1007/978-1-0716-4310-5_9 | DOI Listing |
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