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Related Concept Videos

Restriction Enzymes01:11

Restriction Enzymes

Restriction enzymes are bacterial enzymes used to cut DNA in a sequence-specific manner. To cleave DNA, they bind to specific palindromic sequences called restriction sites. Such palindromic DNA sequences or inverted repeats are commonly found in regions of functional significance, such as the origin of replication, gene operator sites, and regions containing transcription termination signals.
The host bacteria protect their own genomic DNA from these enzymes by methylating these sites. Some...
Single Nucleotide Polymorphisms-SNPs01:05

Single Nucleotide Polymorphisms-SNPs

A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
Conservative Site-specific Recombination and Phase Variation02:53

Conservative Site-specific Recombination and Phase Variation

Because the DNA segments are cut and reorganized in a direction-specific manner, site-specific recombination has emerged as an efficient genetic engineering technique. Flippase and Cyclization recombinases or Flp and Cre, respectively, are two members of the tyrosine recombinase family derived from bacteriophages, that are used to mediate site-specific DNA insertions, deletions, and targeted expression of proteins in mammalian cell lines.
The recognition sites for Cre recombinase called LoxP...

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Related Experiment Video

Updated: Jul 3, 2026

High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture (4C-seq)
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High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture (4C-seq)

Published on: October 5, 2018

Restriction enzyme mining for SNPs in genomes.

Li-Yeh Chuang1, Cheng-Hong Yang, Ke-Hung Tsui

  • 1Department of Chemical Engineering, I-Shou University, Kaohsiung, Taiwan, ROC.

Anticancer Research
|July 25, 2008
PubMed
Summary
This summary is machine-generated.

Restriction enzyme mining for single nucleotide polymorphisms (SNPs) genotyping is a cost-effective method. This review details bioinformatics tools and strategies for efficient SNP genotyping using PCR-restriction fragment length polymorphism (RFLP).

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Detection of Rare Genomic Variants from Pooled Sequencing Using SPLINTER
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Last Updated: Jul 3, 2026

High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture (4C-seq)
09:06

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Published on: October 5, 2018

Detection of Rare Genomic Variants from Pooled Sequencing Using SPLINTER
14:06

Detection of Rare Genomic Variants from Pooled Sequencing Using SPLINTER

Published on: June 23, 2012

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Single nucleotide polymorphisms (SNPs) are crucial genetic markers.
  • Existing SNP genotyping methods are often expensive.
  • Restriction enzyme-based SNP genotyping offers a cost-effective alternative.

Purpose of the Study:

  • To review basic bioinformatics tools for restriction enzyme mining in SNP genotyping.
  • To introduce single nucleotide polymorphisms (SNPs), genotyping, and PCR-restriction fragment length polymorphism (RFLP).
  • To highlight strategies and potential challenges in SNP genotyping using PCR-RFLP.

Main Methods:

  • Review of bioinformatics software for primer design and restriction enzyme mining.
  • Description of PCR-RFLP tools, including natural and mutagenic approaches.
  • Discussion of restriction enzyme implications on DNA strands.

Main Results:

  • Summary of essential bioinformatics tools for restriction enzyme mining.
  • Introduction of the freeware SNP-RFLPing for illustrating PCR-RFLP software characteristics.
  • Identification of potential issues in multiple PCR-RFLP applications.

Conclusions:

  • Bioinformatics tools can simplify restriction enzyme mining for cost-effective SNP genotyping.
  • Further development of PCR-RFLP software will enhance visualization and integration with association studies.
  • The review provides a strategic guide for researchers in SNP genotyping.