GABC: A comprehensive resource and Genome Atlas for Breast Cancer

Yunpeng Zhang, Peng Wang, Xin Li, Shangwei Ning, Xia Li, Yan Cao, Steven Xi Chen

Research output: Contribution to journalArticlepeer-review

Abstract

We developed the Genome Atlas of Breast Cancer (GABC), a global map of noncoding events in the human genome associated with breast cancer that provides a valuable reference resource for users to investigate the underlying genome abnormalities in breast cancer patients. Although significant progress has been made in breast cancer treatment, its morbidity and recurrence rates in women are still high worldwide. Curation and integration of breast cancer-related dysregulations from multiple aspects is essential for disease prevention and diagnosis. In this study, we developed the GABC, which contains 10 172 aberrant noncoding events occurring at multiomics levels, including the genome (single nucleotide polymorphism and somatic mutation), transcriptome (long noncoding RNA and microRNA) and epigenome (DNA methylation, enhancer and superenhancer). Each event entry provides descriptions of detailed biological mechanisms specific to the region or element. Users can also check the genome locations and relationships of functional regulators. The GABC provides a flexible and user-friendly interface for users to search, browse and download data. In addition, the GABC provides an interface to submit newly discovered noncoding events that can be included in the database. Therefore, the GABC aims to constantly enhance our understanding of noncoding genomic events in breast cancer.

Original languageEnglish (US)
Pages (from-to)988-994
Number of pages7
JournalInternational Journal of Cancer
Volume148
Issue number4
DOIs
StatePublished - Feb 15 2021

Keywords

  • breast cancer
  • databases
  • manual curation
  • multiomics
  • noncoding RNAs

ASJC Scopus subject areas

  • Oncology
  • Cancer Research

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