CanCellVar: A database for single-cell variants map in human cancer

Numerous variants, including both single-nucleotide variants (SNVs) in DNA and A>G RNA edits in mRNA as essential drivers of cellular proliferation and tumorigenesis, are commonly associated with cancer progression and growth. Thus, mining and summarizing single-cell variants will provide a refin...

Ausführliche Beschreibung

Gespeichert in:
Bibliographische Detailangaben
Veröffentlicht in:American journal of human genetics 2024-07, Vol.111 (7), p.1420-1430
Hauptverfasser: Yang, Changbo, Liu, Yujie, Lv, Chongwen, Xu, Mengjia, Xu, Kang, Shi, Jingyi, Tan, Tingting, Zhou, Weiwei, Lv, Dezhong, Li, Yongsheng, Xu, Juan, Shao, Tingting
Format: Artikel
Sprache:eng
Online-Zugang:Volltext
Tags: Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
Beschreibung
Zusammenfassung:Numerous variants, including both single-nucleotide variants (SNVs) in DNA and A>G RNA edits in mRNA as essential drivers of cellular proliferation and tumorigenesis, are commonly associated with cancer progression and growth. Thus, mining and summarizing single-cell variants will provide a refined and higher-resolution view of cancer and further contribute to precision medicine. Here, we established a database, CanCellVar, which aims to provide and visualize the comprehensive atlas of single-cell variants in tumor microenvironment. The current CanCellVar identified ∼3 million variants (∼1.4 million SNVs and ∼1.4 million A>G RNA edits) involved in 2,754,531 cells of 5 major cell types across 37 cancer types. CanCellVar provides the basic annotation information as well as cellular and molecular function properties of variants. In addition, the clinical relevance of variants can be obtained including tumor grade, treatment, metastasis, and others. Several flexible tools were also developed to aid retrieval and to analyze cell-cell interactions, gene expression, cell-development trajectories, regulation, and molecular structure affected by variants. Collectively, CanCellVar will serve as a valuable resource for investigating the functions and characteristics of single-cell variations and their roles in human tumor evolution and treatment. [Display omitted] CanCellVar is a database of cancer single-cell variants. It provides the basic annotation information as well as cellular and molecular function properties of variants. Several flexible tools are also developed to aid retrieval and to analyze cell-cell interactions, gene expression, cell development trajectories, regulation, and molecular structure affected by variants in CanCellVar.
ISSN:0002-9297
1537-6605
1537-6605
DOI:10.1016/j.ajhg.2024.05.014