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Related Concept Videos

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...
lncRNA - Long Non-coding RNAs02:39

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 (lncRNA)...
lncRNA - Long Non-coding RNAs02:39

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 (lncRNA)...
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...
Non-LTR Retrotransposons03:18

Non-LTR Retrotransposons

As the name suggests, non-LTR retrotransposons lack the long terminal repeats characteristic of the LTR retrotransposons. Additionally, both LTR and non-LTR retrotransposons use distinct mechanisms of mobilization. Non-LTR retrotransposons are further divided into two classes - Long interspersed nuclear elements (LINEs) and short interspersed nuclear elements (SINEs), both of which occur abundantly in most mammals, including humans. Some of the active non-LTR retrotransposons in humans are L1...
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...

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Related Experiment Video

Updated: May 13, 2026

Global Identification of Co-Translational Interaction Networks by Selective Ribosome Profiling
06:58

Global Identification of Co-Translational Interaction Networks by Selective Ribosome Profiling

Published on: October 7, 2021

iSeeRNA: identification of long intergenic non-coding RNA transcripts from transcriptome sequencing data.

Kun Sun1, Xiaona Chen, Peiyong Jiang

  • 1Li Ka Shing Institute of Health Sciences, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong SAR, China.

BMC Genomics
|March 1, 2013
PubMed
Summary
This summary is machine-generated.

iSeeRNA accurately identifies long intergenic non-coding RNAs (lincRNAs) from assembled transcripts. This SVM-based tool offers superior performance and speed for lincRNA discovery in transcriptomic studies.

More Related Videos

iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution
10:45

iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution

Published on: April 30, 2011

Related Experiment Videos

Last Updated: May 13, 2026

Global Identification of Co-Translational Interaction Networks by Selective Ribosome Profiling
06:58

Global Identification of Co-Translational Interaction Networks by Selective Ribosome Profiling

Published on: October 7, 2021

iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution
10:45

iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution

Published on: April 30, 2011

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Long intergenic non-coding RNAs (lincRNAs) are critical gene regulators.
  • Identifying lincRNAs from vast transcriptomic data is challenging due to overlap with protein-coding transcripts (PCTs).
  • High-throughput RNA-sequencing and de novo assembly enable novel transcript discovery.

Purpose of the Study:

  • To develop an accurate and efficient computational tool for lincRNA identification.
  • To differentiate lincRNAs from PCTs in assembled transcriptomes.

Main Methods:

  • Implementation of iSeeRNA, a support vector machine (SVM)-based classifier.
  • Utilizing features to distinguish lincRNAs from PCTs.

Main Results:

  • iSeeRNA demonstrates superior performance compared to existing software for lincRNA identification.
  • The tool achieves high prediction accuracy and significantly faster execution.
  • A webserver for iSeeRNA is available for analyzing small datasets.

Conclusions:

  • iSeeRNA provides a valuable and rapid tool for lincRNA research.
  • The classifier can be integrated into transcriptome analysis pipelines.
  • Facilitates accurate lincRNA discovery and gene regulatory studies.