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Related Concept Videos

lncRNA - Long Non-coding RNAs02:39

lncRNA - Long Non-coding RNAs

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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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Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
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Ribosome synthesis is a highly complex and coordinated process involving more than 200 assembly factors. The synthesis and processing of ribosomal components occurs not only in the nucleolus but also in the nucleoplasm and the cytoplasm of eukaryotic cells.
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RNA-seq03:21

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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. 
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Three main types of RNA are involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). These RNAs perform diverse functions and can be broadly classified as protein-coding or non-coding RNA. Non-coding RNAs play important roles in regulating gene expression in response to developmental and environmental changes. Non-coding RNAs in prokaryotes can be manipulated to develop more effective antibacterial drugs for human or animal use.
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Identification of RNAs Engaged in Direct RNA-RNA Interaction with a Long Non-Coding RNA
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Exploring Non-Coding RNAs in RNAcentral.

Blake A Sweeney1, Arina A Tagmazian1,2, Carlos E Ribas1

  • 1European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.

Current Protocols in Bioinformatics
|August 27, 2020
PubMed
Summary
This summary is machine-generated.

RNAcentral is a unified database for non-coding RNAs (ncRNAs), integrating data from over 40 resources. It offers multiple access methods, including web APIs and a Galaxy workflow for RNA-seq analysis.

Keywords:
GalaxyRNA-seqRNAcentralncRNAnon-coding RNA

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Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Genomics

Background:

  • Non-coding RNAs (ncRNAs) are crucial for cellular functions across all life forms.
  • Data on ncRNAs is fragmented across numerous specialized databases.
  • Understanding ncRNA function requires integrated access to diverse annotations.

Purpose of the Study:

  • To introduce RNAcentral as a comprehensive, unified database for non-coding RNA sequences and annotations.
  • To detail various methods for accessing and utilizing RNAcentral data.
  • To demonstrate the application of RNAcentral in RNA sequencing (RNA-seq) analysis.

Main Methods:

  • Website-based searching and data retrieval.
  • Programmatic access via web APIs.
  • Direct access to a public PostgreSQL database.
  • Integration with Galaxy for RNA-seq differential expression analysis.

Main Results:

  • RNAcentral consolidates annotations from over 40 contributing databases.
  • Provides user-friendly web interfaces for data exploration.
  • Offers robust programmatic access for automated data retrieval and analysis.
  • Enables advanced analysis, such as differential gene expression, using RNA-seq data.

Conclusions:

  • RNAcentral serves as a central hub for non-coding RNA information.
  • Facilitates deeper insights into ncRNA function through integrated data access.
  • Empowers researchers with versatile tools for ncRNA data analysis.