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CNAScope: pan-cancer copy number aberration database with functional annotation and interactive visualization
Xikang Feng1,2, Jieyi Zheng1, Sisi Peng1
1School of Software, Northwestern Polytechnical University, Xi'an 710072, China.
Nucleic Acids Research
|November 20, 2025
Summary
CNAScope is a new database that provides functional annotations and visualizations for copy number aberrations (CNAs) in cancer. This resource aids researchers in understanding genomic diversity and accelerating cancer research.
Area of Science:
- Genomics
- Oncology
- Bioinformatics
Background:
- Copy number aberrations (CNAs) are key drivers of genomic diversity and tumorigenesis in cancer.
- Existing resources lack specificity, data modality breadth, and functional annotation for recurrent CNAs.
Purpose of the Study:
- To present CNAScope, a comprehensive database for curated and functionally annotated somatic CNAs.
- To provide interactive visualization and annotation tools for cancer genomic data.
Main Methods:
- Curated over 3.9 million CNA profiles and 3.9 million metadata from 810 datasets.
- Integrated data from 174,464 samples across 77 cancer subtypes.
- Developed interactive tools for visualization, phylogenetic inference, and CNA detection.
Main Results:
- CNAScope houses extensive CNA profiles and metadata from diverse cancer datasets.
- The database offers downloadable annotations and interactive visualizations at multiple levels (bin, gene, pathway).
- Includes tools for exploring data via heatmaps, phylogenetic trees, and embedding plots.
Conclusions:
- CNAScope is a vital resource for cancer research, offering a large, annotated collection of CNA data.
- Facilitates in-depth analysis and exploration of genomic diversity in cancer.
- Empowers researchers to upload and annotate their own CNA data for real-time analysis.
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