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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. 
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Related Experiment Video

Updated: May 9, 2026

Novel Sequence Discovery by Subtractive Genomics
09:40

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

RepEx: repeat extractor for biological sequences.

M Gurusaran1, Dheeraj Ravella, K Sekar

  • 1Supercomputer Education and Research Centre, Indian Institute of Science, Bangalore 560 012, India.

Genomics
|July 25, 2013
PubMed
Summary
This summary is machine-generated.

Genomic sequences contain rich, non-random patterns. A new toolkit, RepEx, precisely extracts various repeat patterns from genome and protein sequences, outperforming existing tools.

Keywords:
Amino acid repeat sequenceGenomeInverted repeat sequencesPalindromic repeat sequencesRepetitive sequencesSoftware

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Last Updated: May 9, 2026

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13:10

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Primer Extension Capture: Targeted Sequence Retrieval from Heavily Degraded DNA Sources

Published on: September 3, 2009

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Genomic sequences exhibit systematic, information-rich patterns, crucial for understanding genome function and organization.
  • Repeated sequence patterns are fundamental to genome analysis.

Purpose of the Study:

  • To develop a comprehensive toolkit, RepEx, for extracting diverse repeat patterns from genomic and protein sequences.
  • To provide a tool that is precise and sensitive for identifying repeat sequences without constraints.

Main Methods:

  • The RepEx toolkit was developed to extract inverted, everted, and mirror repeat patterns.
  • It can identify exact and degenerate repeats with user-defined spacer intervals.
  • The toolkit also processes protein sequences for inverted repeats.

Main Results:

  • RepEx successfully extracts various repeat patterns from genome and protein sequences.
  • The toolkit demonstrates higher precision and sensitivity compared to existing tools.
  • Case studies and performance evaluations validate RepEx's efficiency and accuracy.

Conclusions:

  • RepEx is an efficient and accurate toolkit for identifying repeat patterns in genomic and protein data.
  • Its comprehensive features and improved performance offer significant advantages for bioinformatics research.
  • The toolkit aids in a deeper understanding of genome function and organization through repeat analysis.