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ANGIOGENES: knowledge database for protein-coding and noncoding RNA genes in endothelial cells.

Raphael Müller1,2,3, Tyler Weirick1,2, David John1,2

  • 1Institute of Cardiovascular Regeneration, Centre for Molecular Medicine, Goethe University Frankfurt, Theodor-Stern-Kai 7, Frankfurt am Main 60590, Germany.

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|September 2, 2016
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Summary
This summary is machine-generated.

A new database, ANGIOGENES, aids in identifying long noncoding RNAs (lncRNAs) and protein-coding genes in endothelial cells. This resource facilitates research into gene function and angiogenesis.

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Area of Science:

  • * Molecular Biology
  • * Genomics
  • * Bioinformatics

Background:

  • * Long noncoding RNAs (lncRNAs) exhibit cell-specific expression patterns.
  • * Current lncRNA annotation lacks comprehensive schemes, hindering identification and description.
  • * Endothelial cells, present in all tissues, are crucial for various biological processes.

Purpose of the Study:

  • * To introduce ANGIOGENES, a novel knowledge database for in silico screening of endothelial transcripts.
  • * To provide a centralized resource for analyzing protein-coding genes and lncRNAs in endothelial cells.
  • * To facilitate functional studies on the roles of these transcripts in angiogenesis.

Main Methods:

  • * Analysis of publicly available RNA-sequencing (RNA-seq) data from human, mouse, and zebrafish.
  • * Integration of the latest annotations for protein-coding genes and lncRNAs.
  • * Development of the ANGIOGENES database for intuitive data retrieval and screening.

Main Results:

  • * Identification of transcripts expressed in various endothelial cell types across species.
  • * Incorporation of analyzed transcriptomic data into the ANGIOGENES database.
  • * ANGIOGENES offers screening for expressed, enriched, and specific endothelial transcripts.

Conclusions:

  • * ANGIOGENES serves as a valuable, user-friendly platform for endothelial transcriptomics.
  • * The database supports the exploration of both protein-coding genes and lncRNAs.
  • * ANGIOGENES is expected to accelerate functional studies in angiogenesis research.