liqDB Edit

Citations: 0

z-index: 0

Basic information
Short name liqDB
Full name
Description a browsable and interactive database for small RNA abundance in biofluids.
URL http://bioinfo5.ugr.es/liqdb
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 University of Granada
Address Computational Epigenomics Lab, Evolutionary Genomics and Bioinformatics Group. Dept. of Genetics, Inst. of Biotechnology, University of Granada, Spain
City
Province/State
Country/Region Spain
Contact name (PI/Team) Michael Hackenberg
Contact email (PI/Helpdesk) hackenberg@ugr.es
Data information
Data object
Data type
Database category
Major organism
Keyword
Publications
  • liqDB: a small-RNAseq knowledge discovery database for liquid biopsy studies. [PMID: 30357370]
    Ernesto Aparicio-Puerta, David Jáspez, Ricardo Lebrón, Danijela Koppers-Lalic, Juan A Marchal, Michael Hackenberg

    MiRNAs are important regulators of gene expression and are frequently deregulated under pathologic conditions. They are highly stable in bodily fluids which makes them feasible candidates to become minimally invasive biomarkers. In fact, several studies already proposed circulating miRNA-based biomarkers for different types of neoplastic, cardiovascular and degenerative diseases. However, many of these studies rely on small RNA sequencing experiments that are based on different RNA extraction and processing protocols, rendering results incomparable. We generated liqDB, a database for liquid biopsy small RNA sequencing profiles that provides users with meaningful information to guide their small RNA liquid biopsy research and to overcome technical and conceptual problems. By means of a user-friendly web interface, miRNA expression profiles from 1607 manually annotated samples can be queried and explored at different levels. Result pages include downloadable expression matrices, differential expression analysis, most stably expressed miRNAs, cluster analysis and relevant visualizations by means of boxplots and heatmaps. We anticipate that liqDB will be a useful tool in liquid biopsy research as it provides a consistently annotated large compilation of experiments together with tools for reproducible analysis, comparison and hypothesis generation. LiqDB is available at http://bioinfo5.ugr.es/liqdb.

    Nucleic Acids Res 2019:47(D1)

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

Rank

  • Ranking in all databases: No. 0
  • Ranking in category/categories:
    • Expression: No. 0
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 liqDB.

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Record metadata

  • Created on: 2019-01-04
    • ***d@***c.cn [2019-01-12]
    • ***d@***c.cn [2019-01-12]
    • ***d@***c.cn [2019-01-04]

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