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lncRNA - Long Non-coding RNAs02:39

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LnCompare: gene set feature analysis for human long non-coding RNAs.

Joana Carlevaro-Fita1,2, Leibo Liu3, Yuan Zhou4

  • 1Department of BioMedical Research (DBMR), University of Bern, Bern 3008, Switzerland.

Nucleic Acids Research
|June 1, 2019
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Summary
This summary is machine-generated.

LnCompare is a new web server for analyzing long noncoding RNA (lncRNA) gene sets. It helps researchers find biological insights and similar genes from lncRNA data.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Long noncoding RNAs (lncRNAs) are increasingly studied for their biological roles.
  • Analyzing large sets of lncRNAs, such as those differentially expressed between conditions, requires specialized tools.
  • Current analysis methods for protein-coding genes, like ontology and pathway analysis, are not directly applicable to lncRNA gene sets.

Purpose of the Study:

  • To present LnCompare, a novel web server designed for the comprehensive analysis of lncRNA gene sets.
  • To provide researchers with a tool equivalent to existing resources for protein-coding gene set analysis.
  • To enable hypothesis generation and identification of candidate lncRNAs from large datasets.

Main Methods:

  • The LnCompare web server offers two primary modes: Gene Set Feature Comparison and Similar Gene Identification.
  • Gene Set Feature Comparison analyzes enrichment of various features including gene structure, conservation, expression, localization, repetitive sequences, and disease association.
  • Similar Gene Identification allows users to find lncRNAs with similar characteristics across selected features.

Main Results:

  • LnCompare provides a robust platform for interrogating lncRNA gene sets.
  • The web server facilitates the statistical enrichment testing of diverse quantitative and categorical features.
  • Users can download comprehensive results in tabular and graphical formats, along with the feature resource itself.

Conclusions:

  • LnCompare empowers researchers to extract meaningful hypotheses and identify candidate long noncoding RNAs from their data.
  • This resource bridges a gap in computational tools for lncRNA functional genomics research.
  • The tool supports deeper understanding of lncRNA functions and their involvement in biological processes and diseases.