Abstract
Autoantibodies are antibodies against host self-proteins (autoantigens), which play significant roles in homeostasis maintenance and diseases with autoimmune disorders. Numerous papers were published in the past decade on the identification of human autoantigens in different human diseases. However, there is no consensus collection with all the reported autoantigens yet. To address this need, previously we developed a human autoantigen database, AAgAtlas 1.0, by text-mining and manual curation, which collects 1126 autoantigens associated with 1071 human diseases. AAgAtlas 1.0 provides a user-friendly interface to conveniently browse, retrieve, and download human autoantigen genes, their functional annotation, related diseases, and the evidence from the literature. AAgAtlas is freely available online http://biokb.ncpsb.org/aagatlas/. In this chapter, we make an introduction and provide a guide to the users of AAgAtlas 1.0 database.
This is a preview of subscription content, log in via an institution to check access.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Ludwig RJ, Vanhoorelbeke K, Leypoldt F et al (2017) Mechanisms of autoantibody-induced pathology. Front Immunol 8:603. https://doi.org/10.3389/fimmu.2017.00603
Plotz PH (2003) The autoantibody repertoire: searching for order. Nat Rev Immunol 3(1):73–78. https://doi.org/10.1038/nri976
Wang X, Yu J, Sreekumar A et al (2005) Autoantibody signatures in prostate cancer. N Engl J Med 353(12):1224–1235. https://doi.org/10.1056/NEJMoa051931
Wang D, Yang L, Zhang P et al (2017) AAgAtlas 1.0: a human autoantigen database. Nucleic Acids Res 45(D1):D769–D776. https://doi.org/10.1093/nar/gkw946
Nolan E, Lindeman GJ, Visvader JE (2017) Out-RANKing BRCA1 in mutation carriers. Cancer Res 77(3):595–600. https://doi.org/10.1158/0008-5472.CAN-16-2025
Melchor L, Benitez J (2013) The complex genetic landscape of familial breast cancer. Hum Genet 132(8):845–863. https://doi.org/10.1007/s00439-013-1299-y
Zhu Q, Han SX, Zhou CY et al (2015) Autoimmune response to PARP and BRCA1/BRCA2 in cancer. Oncotarget 6(13):11575–11584. https://doi.org/10.18632/oncotarget.3428
Chapman C, Murray A, Chakrabarti J et al (2007) Autoantibodies in breast cancer: their use as an aid to early diagnosis. Ann Oncol 18(5):868–873. https://doi.org/10.1093/annonc/mdm007
McGuire A, Brown JA, Malone C et al (2015) Effects of age on the detection and management of breast cancer. Cancers (Basel) 7(2):908–929. https://doi.org/10.3390/cancers7020815
Schairer C, Pfeiffer RM, Gadalla SM (2018) Autoimmune diseases and breast cancer risk by tumor hormone-receptor status among elderly women. Int J Cancer 142(6):1202–1208. https://doi.org/10.1002/ijc.31148
Acknowledgments
This work was supported by the Chinese National Major Project for New Drug Innovation (2018ZX09733003), National Key Basic Research Project (2018YFA0507503, 2017YFC0906703), National Natural Science Foundation of China (81673040 and 31870823), State Key Laboratory of Proteomics (SKLP-O201703 and SKLP-K201505), and Capital’s Funds for Health Improvement and Research (2018-2-4034).
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2020 Springer Science+Business Media, LLC, part of Springer Nature
About this protocol
Cite this protocol
Wang, D., Zhang, Y., Meng, Q., Yu, X. (2020). AAgAtlas 1.0: A Database of Human Autoantigens Extracted from Biomedical Literature. In: Tomar, N. (eds) Immunoinformatics. Methods in Molecular Biology, vol 2131. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-0389-5_21
Download citation
DOI: https://doi.org/10.1007/978-1-0716-0389-5_21
Published:
Publisher Name: Humana, New York, NY
Print ISBN: 978-1-0716-0388-8
Online ISBN: 978-1-0716-0389-5
eBook Packages: Springer Protocols