Merit of integrating in situ transcriptomics and anatomical information for cell annotation and lineage construction in single-cell analyses of Populus
Journal
Genome biology
Journal Volume
25
Journal Issue
1
Pages
Article number 85
Date Issued
2024-04-03
Author(s)
Chen, Ying-Lan
Hsieh, Jo-Wei Allison
Kuo, Shang-Che
Kao, Chung-Ting
Tung, Chia-Chun
Yu, Jhong-He
Chang, Tien-Hsien
Ku, Chuan
Xie, Jianbo
Zhang, Deqiang
Li, Quanzi
Abstract
Cell type annotation and lineage construction are two of the most critical tasks conducted in the analyses of single-cell RNA sequencing (scRNA-seq). Four recent scRNA-seq studies of differentiating xylem propose four models on differentiating xylem development in Populus. The differences are mostly caused by the use of different strategies for cell type annotation and subsequent lineage interpretation. Here, we emphasize the necessity of using in situ transcriptomes and anatomical information to construct the most plausible xylem development model.
Publisher
BioMed Central Ltd
Type
journal article