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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...
Next-generation Sequencing03:00

Next-generation Sequencing

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Maxam-Gilbert Sequencing01:05

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In the same year as the discovery of the Sanger sequencing method, another group of scientists, Allan Maxam and Walter Gilbert, demonstrated their chemical-cleavage method for DNA sequencing. The Maxam-Gilbert method relies on using different chemicals that can cleave the DNA sequence at specific sites, the separation of resulting DNA fragments of variable size using electrophoresis, and deciphering the DNA sequence from the resulting gel bands.
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DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...
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Related Experiment Video

Updated: May 24, 2026

Novel Sequence Discovery by Subtractive Genomics
09:40

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

Novel insight into the non-coding repertoire through deep sequencing analysis.

Ofer Isakov1, Roy Ronen, Judit Kovarsky

  • 1Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv 69978, Israel.

Nucleic Acids Research
|March 13, 2012
PubMed
Summary

This study introduces RandA, a user-friendly software for analyzing non-coding RNA (ncRNA) expression from deep sequencing data. RandA reveals ncRNA complexity and aids in identifying features in infected cells.

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Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Non-coding RNAs (ncRNAs) constitute a significant portion of the transcriptome and are vital for cellular functions.
  • Deep sequencing technologies are increasingly utilized for transcript expression profiling, including ncRNAs.

Purpose of the Study:

  • To develop a comprehensive software tool, RandA (ncRNA Read-and-Analyze), for ncRNA profiling and differential expression analysis.
  • To provide a user-friendly graphical interface for analyzing deep sequencing data on a local personal computer.

Main Methods:

  • Development of the RandA software with a graphical user interface.
  • Application of RandA to analyze ncRNA repertoire complexity.
  • Utilizing RandA for characterizing features in pathogen-infected mammalian cells.

Main Results:

  • RandA enables comprehensive ncRNA profiling and differential expression analysis.
  • The software successfully revealed the complexity of the ncRNA repertoire in cell populations.
  • Extensive ncRNA analysis using RandA elucidated characterizing features in infected mammalian cells.

Conclusions:

  • RandA is an effective tool for in-depth ncRNA analysis using deep sequencing data.
  • Comprehensive ncRNA profiling is relevant for understanding cellular mechanisms, particularly in disease states.
  • The RandA software is publicly available for research use.