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An Updated Overview of Existing Cancer Databases and Identified Needs
Brittany K Austin1, Ali Firooz2, Homayoun Valafar2
1Department of Biomedical Sciences, School of Medicine Greenville, University of South Carolina, Greenville, SC 29605, USA.
Biology
|August 26, 2023
Summary
A review of 71 cancer databases found significant growth but identified critical gaps in lipidomic and glycomic data. Further development is needed to improve cancer research resources and accessibility.
Area of Science:
- Bioinformatics
- Cancer Research
- Data Science
Background:
- Existing cancer databases are crucial for research but their current landscape and limitations are not well-defined.
- Understanding the availability and quality of multi-omics data (genomics, proteomics, lipidomics, glycomics) in cancer research is essential.
Purpose of the Study:
- To assess the current state of cancer-related databases, focusing on multi-omics data.
- To identify key needs and gaps in cancer database resources, particularly in lipidomics and glycomics.
- To evaluate the FAIRness (Findability, Accessibility, Interoperability, Reusability) of existing databases.
Main Methods:
- Conducted a comprehensive search of 71 existing cancer databases.
- Analyzed databases across genomics, proteomics, lipidomics, and glycomics.
- Included human non-cancer databases for comparative analysis of proteomics, lipidomics, and glycomics over eight years.
- Assessed database user-friendliness using the FAIRness principles.
Main Results:
- Identified a significant lack of dedicated cancer-related lipidomic and glycomic databases.
- Found limitations in the number of proteomic databases specifically for cancer research.
- Observed growth in cancer databases overall, but highlighted specific areas needing development.
- Evaluated databases for findability, accessibility, interoperability, and reusability.
Conclusions:
- Cancer database resources have grown, but critical gaps persist, especially in lipidomics and glycomics.
- Enhancing the accessibility, integration, and usability of cancer databases is vital for research advancement.
- Addressing these identified needs will significantly benefit cancer researchers, clinicians, and the broader scientific community.
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