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lncRNA - Long Non-coding RNAs

lncRNA - Long Non-coding RNAs

In humans, more than 80% of the genome gets transcribed. However, only around 2% of the genome codes for proteins. The remaining part produces non-coding RNAs which includes ribosomal RNAs, transfer RNAs, telomerase RNAs, and regulatory RNAs, among other types. A large number of regulatory non-coding RNAs have been classified into two groups depending upon their length – small non-coding RNAs, such as microRNA, which are less than 200 nucleotides in length, and long non-coding RNA...

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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...

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Related Experiment Video

Updated: Jun 12, 2025

Identification of RNAs Engaged in Direct RNA-RNA Interaction with a Long Non-Coding RNA

Identification of RNAs Engaged in Direct RNA-RNA Interaction with a Long Non-Coding RNA

Published on: July 9, 2021

lncRNAlyzr: Enrichment Analysis for lncRNA Sets.

John Erol Evangelista¹, Tahleel Ali-Nasser², Lauren E Malek¹

¹Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Department of Artificial Intelligence and Human Health, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, Box 1603, New York, NY 10029, USA.

Journal of Molecular Biology

|March 26, 2025

Summary

lncRNAlyzr is a new webserver for analyzing long non-coding RNA (lncRNA) functions. It helps researchers understand lncRNA roles in biological processes and diseases by providing enrichment analysis tools.

Keywords:

Enrichr Enrichr-KG enrichment analysis knowledge graphs lncRNA

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Last Updated: Jun 12, 2025

Identification of RNAs Engaged in Direct RNA-RNA Interaction with a Long Non-Coding RNA

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Published on: July 9, 2021

A Rapid High-throughput Method for Mapping Ribonucleoproteins RNPs on Human pre-mRNA

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Published on: December 2, 2009

Three Differential Expression Analysis Methods for RNA Sequencing: limma, EdgeR, DESeq2

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Published on: September 18, 2021

Area of Science:

Genomics
Bioinformatics
Molecular Biology

Background:

Long non-coding RNAs (lncRNAs) constitute a significant portion of the human genome and influence numerous biological processes.
Despite their importance, lncRNAs remain less studied than protein-coding genes.
Existing gene set enrichment analysis tools primarily focus on coding genes, leaving a gap for lncRNA-specific analysis.

Purpose of the Study:

To introduce lncRNAlyzr, a novel webserver application designed for lncRNA enrichment analysis.
To provide a user-friendly platform for exploring the functional roles of lncRNAs in various biological contexts.
To facilitate a deeper understanding of lncRNA involvement in both normal physiology and disease states.

Main Methods:

lncRNAlyzr utilizes a curated database comprising 33 lncRNA set libraries.
These libraries are constructed by calculating correlations between lncRNAs and annotated coding gene sets.
Enrichment analysis is performed by users submitting a list of lncRNAs, with results visualized as subnetworks.

Main Results:

The webserver visualizes enrichment analysis results as ball-and-stick subnetworks.
Nodes in these subnetworks represent lncRNAs, interconnected with enrichment terms from the lncRNA set libraries.
A demonstration using lncRNA CYTOR knockdown in K562 cells showcased the tool's utility.

Conclusions:

lncRNAlyzr serves as a valuable tool for lncRNA enrichment analysis.
The application aims to enhance the functional annotation and understanding of lncRNAs.
It provides a unique resource for exploring lncRNA functional modules and their biological significance.