CanVaxKB: a web-based cancer vaccine knowledgebase-Reference-Cited by-同舟云学术

CanVaxKB: a web-based cancer vaccine knowledgebase

Published:2024-01-09 Issue:1 Volume:6 Page:
ISSN:2632-8674
Container-title:NAR Cancer
language:en
Short-container-title:

Author:

Asfaw Eliyas¹²,Lin Asiyah Yu³⁴,Huffman Anthony⁵,Li Siqi¹,George Madison¹^ORCID,Darancou Chloe¹,Kalter Madison¹,Wehbi Nader¹,Bartels Davis⁶,Fleck Elyse¹,Tran Nancy¹,Faghihnia Daniel¹,Berke Kimberly¹,Sutariya Ronak¹,Reyal Farah⁷,Tammam Youssef⁷,Zhao Bin³,Ong Edison⁵,Xiang Zuoshuang³,He Virginia⁸,Song Justin⁶,Seleznev Andrey I⁹,Guo Jinjing³¹⁰^ORCID,Pan Yuanyi³¹¹,Zheng Jie³,He Yongqun³⁵¹²^ORCID

Affiliation:

1. College of Literature, Science, and the Arts, University of Michigan , Ann Arbor , MI 48109 , USA

2. School of Medicine, University of Michigan , Ann Arbor , MI 48109 , USA

3. Unit for Laboratory Animal Medicine, University of Michigan Medical School , Ann Arbor , MI 48109 , USA

4. National Institutes of Health , 9000 Rockville Pike , Bethesda , MD 20892 , USA

5. Department of Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor , MI 48109 , USA

6. College of Electrical Engineering and Computer Science, University of Michigan , Ann Arbor , MI 48109 , USA

7. Department of Chemical, Biochemical and Environmental Engineering, University of Maryland, Baltimore County , Baltimore , MD 21250 , USA

8. The College of Brown University, Brown University , Providence , RI 02912 , USA

9. Dietrich School of Arts and Sciences, University of Pittsburgh , Pittsburgh , PA 15260 , USA

10. School of Information Management, Nanjing University , Nanjing , Jiangsu 210023 , China

11. School of Medicine, Guizhou University , Guiyang , Guizhou 550025 , China

12. Rogel Cancer Center, University of Michigan Medical School , Ann Arbor , MI 48109 , USA

Abstract

Abstract Cancer vaccines have been increasingly studied and developed to prevent or treat various types of cancers. To systematically survey and analyze different reported cancer vaccines, we developed CanVaxKB (https://violinet.org/canvaxkb), the first web-based cancer vaccine knowledgebase that compiles over 670 therapeutic or preventive cancer vaccines that have been experimentally verified to be effective at various stages. Vaccine construction and host response data are also included. These cancer vaccines are developed against various cancer types such as melanoma, hematological cancer, and prostate cancer. CanVaxKB has stored 263 genes or proteins that serve as cancer vaccine antigen genes, which we have collectively termed ‘canvaxgens’. Top three mostly used canvaxgens are PMEL, MLANA and CTAG1B, often targeting multiple cancer types. A total of 193 canvaxgens are also reported in cancer-related ONGene, Network of Cancer Genes and/or Sanger Cancer Gene Consensus databases. Enriched functional annotations and clusters of canvaxgens were identified and analyzed. User-friendly web interfaces are searchable for querying and comparing cancer vaccines. CanVaxKB cancer vaccines are also semantically represented by the community-based Vaccine Ontology to support data exchange. Overall, CanVaxKB is a timely and vital cancer vaccine source that facilitates efficient collection and analysis, further helping researchers and physicians to better understand cancer mechanisms.

Funder

National Institute of Allergy and Infectious Diseases

Undergraduate Research Opportunity Program

University of Michigan

Publisher

Oxford University Press (OUP)

Subject

Cancer Research,Oncology

Link

https://academic.oup.com/narcancer/article-pdf/6/1/zcad060/55261340/zcad060.pdf

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