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RNA-seq03:21

RNA-seq

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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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Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
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Riboswitches are non-coding mRNA domains that regulate the transcription and translation of downstream genes without the help of proteins. Riboswitches bind directly to a metabolite and can form unique stem-loop or hairpin structures in response to the amount of the metabolite present. They have two distinct regions – a metabolite-binding aptamer and an expression platform.
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lncRNA - Long Non-coding RNAs02:39

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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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Updated: Dec 5, 2025

Identification of Circular RNAs using RNA Sequencing
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circ2GO: A Database Linking Circular RNAs to Gene Function.

Yanhong Lyu1,2,3, Maiwen Caudron-Herger3, Sven Diederichs1,2,3

  • 1Department of Thoracic Surgery, Division of Cancer Research, Medical Center-University of Freiburg, Faculty of Medicine, University of Freiburg, 79106 Freiburg, Germany.

Cancers
|October 17, 2020
PubMed
Summary

This study introduces circ2GO, a database linking circular RNAs (circRNAs) to their host genes' functions. It provides comprehensive data on circRNA expression, miRNA targets, and biological roles, aiding cancer research.

Keywords:
circRNAgene ontologylung cancermicroRNA

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Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Circular RNAs (circRNAs) are crucial regulators in various biological processes, including cancer.
  • Understanding circRNA functions requires systematic data integration and analysis.

Purpose of the Study:

  • To develop circ2GO, a comprehensive database linking circRNAs to their host genes' functions and biological processes.
  • To provide insights into circRNA expression patterns and potential miRNA interactions.

Main Methods:

  • Deep transcriptomics analysis of 60 lung cancer and non-transformed cell lines.
  • Integration of Gene Ontology (GO) information to associate circRNAs with gene functions.
  • Development of predictive models for circRNA-microRNA (miRNA) interactions.

Main Results:

  • circ2GO contains 148,811 human circRNAs from 12,251 genes, mapped to all gene isoforms.
  • Data visualization includes transcript maps and heatmaps for intuitive analysis of circRNA abundance.
  • Predicted miRNA targets for 25,166 abundant circRNAs and 897 human miRNAs are available.

Conclusions:

  • circ2GO serves as a valuable resource for exploring circRNA functions, biological roles, and miRNA interactions.
  • The database facilitates hypothesis generation regarding circRNA involvement in physiological and pathological processes, particularly cancer.
  • User-friendly features and advanced search options enhance the utility of circ2GO for researchers.