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Related Concept Videos

RNA-seq03:21

RNA-seq

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 microarray-based...
RNA Interference01:23

RNA Interference

RNA interference (RNAi) is a process in which a small non-coding RNA molecule blocks the post-transcriptional expression of a gene by binding to its messenger RNA (mRNA) and preventing the protein from being translated.
This process occurs naturally in cells, often through the activity of genomically-encoded microRNAs. Researchers can take advantage of this mechanism by introducing synthetic RNAs to deactivate specific genes for research or therapeutic purposes. For example, RNAi could be used...
Ribosome Profiling02:24

Ribosome Profiling

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.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...
siRNA - Small Interfering RNAs02:30

siRNA - Small Interfering RNAs

Small interfering RNAs, or siRNAs, are short regulatory RNA molecules that can silence genes post-transcriptionally, as well as the transcriptional level in some cases. siRNAs are important for protecting cells against viral infections and silencing transposable genetic elements.
In the cytoplasm, siRNA is processed from a double-stranded RNA, which comes from either endogenous DNA transcription or exogenous sources like a virus. This double-stranded RNA is then cleaved by the ATP-dependent...
Small interfering RNAs (siRNA)02:30

Small interfering RNAs (siRNA)

Small interfering RNAs, or siRNAs, are short regulatory RNA molecules that can silence genes post-transcriptionally, as well as the transcriptional level in some cases. siRNAs are important for protecting cells against viral infections and silencing transposable genetic elements.
In the cytoplasm, siRNA is processed from a double-stranded RNA, which comes from either endogenous DNA transcription or exogenous sources like a virus. This double-stranded RNA is then cleaved by the ATP-dependent...
Experimental RNAi02:15

Experimental RNAi

RNA interference (RNAi) is a cellular mechanism that inhibits gene expression by suppressing its transcription or activating the RNA degradation process. The mechanism was discovered by Andrew Fire and Craig Mello in 1998 in plants. Today, it is observed in almost all eukaryotes, including protozoa, flies, nematodes, insects, parasites, and mammals. This precise cellular mechanism of gene silencing has been developed into a technique that provides an efficient way to identify and determine the...

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Updated: Jun 18, 2026

A Complete Pipeline for Isolating and Sequencing MicroRNAs, and Analyzing Them Using Open Source Tools
09:29

A Complete Pipeline for Isolating and Sequencing MicroRNAs, and Analyzing Them Using Open Source Tools

Published on: August 21, 2019

Identification and classification of small RNAs in transcriptome sequence data.

D Langenberger1, C I Bermudez-Santana, P F Stadler

  • 1University Leipzig, Interdisciplinary Center for Bioinformatics, Haertelstrasse 16-18, D-04107 Leipzig, Germany.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
|November 13, 2009
PubMed
Summary
This summary is machine-generated.

High-throughput sequencing (HTS) reveals short non-coding RNA patterns. These patterns aid in classifying and identifying microRNAs and snoRNAs derived from specific RNA transcripts.

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Area of Science:

  • Molecular Biology
  • Genomics
  • Bioinformatics

Background:

  • High-throughput sequencing (HTS) enables comprehensive transcriptome analysis.
  • Small non-coding RNAs, including microRNAs and snoRNAs, are crucial transcriptome components.
  • These RNAs undergo maturation, producing shorter, identifiable sequences.

Purpose of the Study:

  • To explore the utility of short read sequence data for non-coding RNA classification.
  • To investigate patterns in short reads that reflect RNA processing and origin.

Main Methods:

  • Utilizing high-throughput sequencing (HTS) data.
  • Mapping short reads to a reference genome.
  • Analyzing sequence patterns to infer RNA origin and processing.

Main Results:

  • Observed specific short read patterns correlated with RNA transcripts.
  • Demonstrated that these patterns reflect RNA maturation processes.
  • Identified potential for using read patterns in non-coding RNA identification.

Conclusions:

  • Short read sequence data holds significant potential for classifying and identifying non-coding RNAs.
  • Analysis of read patterns offers insights into RNA processing.
  • This approach can enhance our understanding of the non-coding RNA transcriptome.