Alignment of single-cell trajectory trees with CAPITAL

Reiichi Sugihara, Yuki Kato (), Tomoya Mori and Yukio Kawahara
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Reiichi Sugihara: Osaka University
Yuki Kato: Osaka University
Tomoya Mori: Bioinformatics Center, Institute for Chemical Research, Kyoto University
Yukio Kawahara: Osaka University

Nature Communications, 2022, vol. 13, issue 1, 1-11

Abstract: Abstract Global alignment of complex pseudotime trajectories between different single-cell RNA-seq datasets is challenging, as existing tools mainly focus on linear alignment of single-cell trajectories. Here we present CAPITAL (comparative analysis of pseudotime trajectory inference with tree alignment), a method for comparing single-cell trajectories with tree alignment whereby branching trajectories can be automatically compared. Computational tests on synthetic datasets and authentic bone marrow cells datasets indicate that CAPITAL has achieved accurate and robust alignments of trajectory trees, revealing various gene expression dynamics including gene–gene correlation conservation between different species.

Date: 2022
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DOI: 10.1038/s41467-022-33681-3

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