In the quest to unravel the intricate mechanisms underlying tumors, understanding cancer is crucial for developing effective treatments. The Cancer-Alterome project addresses this challenge by presenting a literature-mined dataset focusing on the regulatory events within an organism's biological processes or clinical phenotypes induced by genetic alterations.
CancerAlterome aims to construct a comprehensive data resource for the Regulatory Events caused by Genetic Alteration (GARE) in the context of cancer. The project defines two categories of gene alterations: gene/protein single nucleotide polymorphisms (SNPs) or point mutations captured by LitVar, and other genetic alterations described in the literature by AGAC[1] corpus, such as gene expression changes and epigenetic modifications. Meanwhile, the downstream biological process is described and normalized using the Gene Ontology (GO) and Human Phenotype Ontology (HPO) in CancerAlterome, facilitating rapid investigation by users. The complete definition of regulatory events is based on the previously developed AGAC[1] corpus.
The complete Cancer-Alterome pipeline construction and data visualization implementation can be accessed on our GitHub repository.
[1] Wang, Yuxing, et al. "Guideline design of an active gene annotation corpus for the purpose of drug repurposing." 2018 11th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics (CISP-BMEI). IEEE, 2018.
If you have any questions or need to contact me, feel free to reach out:
Name: Xinzhi Yao
Email: xinzhi_bioinfo@163.com
Affiliation: China, Hubei, Wuhan, Huazhong Agricultural University, Collega of Informatics