HCCDB Edit

Citations: 2

z-index: 2

Basic information
Short name HCCDB
Full name
Description In the current database release, we archived 15 public HCC gene expression datasets containing totally 3917 samples .
URL http://lifeome.net/database/hccdb/
Year founded
Last update & version
Accessibility Accessible
Contact information

The contact information is provided to facilitate update of database information, and it is curated based on the contact details in the database or the related publications. To ensure effective contact with database constructors, we give priority to the contact details in the database.

University/Institution Tsinghua University
Address
City Beijing
Province/State Beijing
Country/Region China
Contact name (PI/Team) Jin Gu Ph.D
Contact email (PI/Helpdesk) jgu@tsinghua.edu.cn
Data information
Data object
Data type
Database category
Major organism
Keyword
Publications
  • HCCDB: A Database of Hepatocellular Carcinoma Expression Atlas. [PMID: 30266410]
    Qiuyu Lian, Shicheng Wang, Guchao Zhang, Dongfang Wang, Guijuan Luo, Jing Tang, Lei Chen, Jin Gu

    Hepatocellular carcinoma (HCC) is highly heterogeneous in nature and has been one of the most common cancer types worldwide. To ensure repeatability of identified gene expression patterns and comprehensively annotate the transcriptomes of HCC, we carefully curated 15 public HCC expression datasets that cover around 4000 clinical samples and developed the database HCCDB to serve as a one-stop online resource for exploring HCC gene expression with user-friendly interfaces. The global differential gene expression landscape of HCC was established by analyzing the consistently differentially expressed genes across multiple datasets. Moreover, a 4D metric was proposed to fully characterize the expression pattern of each gene by integrating data from The Cancer Genome Atlas (TCGA) and Genotype-Tissue Expression (GTEx). To facilitate a comprehensive understanding of gene expression patterns in HCC, HCCDB also provides links to third-party databases on drug, proteomics, and literatures, and graphically displays the results from computational analyses, including differential expression analysis, tissue-specific and tumor-specific expression analysis, survival analysis, and co-expression analysis. HCCDB is freely accessible at http://lifeome.net/database/hccdb.

    Genomics Proteomics Bioinformatics 2018:16(4)

    2 Citations (from Europe PMC, 2019-06-08)

Rank

  • Ranking in all databases: No. 2358
  • Ranking in category/categories:
    • Gene genome and annotation: No. 691
    • Expression: No. 437
    • Health and medicine: No. 440
The box plots depict Z-index distribution for all databases in Database Commons and for specific database category/categories. The red line indicates log2(Z-index) of HCCDB.

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Record metadata

  • Created on: 2018-09-21
    • ***@***hua.edu.cn [2018-12-01]
    • ***mengyu@***c.cn [2018-09-21]

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