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Related Concept Videos

Single-Strand DNA Binding Proteins01:03

Single-Strand DNA Binding Proteins

For successful DNA replication, the unwinding of double-stranded DNA must be accompanied by stabilization and protection of the separated single strands of the DNA. This crucial task is performed by single-strand DNA-binding (SSB) proteins. They bind to the DNA in a sequence-independent manner, which means that the nitrogenous bases of the DNA need not be present in a specific order for binding of SSB proteins to it. The binding of SSB proteins straightens single-stranded DNA (ssDNA) and makes...
Long-patch Base Excision Repair01:02

Long-patch Base Excision Repair

Since the discovery of the two BER pathways, there has been a debate about how a cell chooses one pathway over the other and the factors determining this selection. Numerous in vitro experiments have pointed out multiple determinants for the sub-pathway selection. These are:
Mismatch Repair01:20

Mismatch Repair

Organisms are capable of detecting and fixing nucleotide mismatches that occur during DNA replication. This sophisticated process requires identifying the new strand and replacing the erroneous bases with correct nucleotides. Mismatch repair is coordinated by many proteins in both prokaryotes and eukaryotes.
The Mutator Protein Family Plays a Key Role in DNA Mismatch Repair
The human genome has more than 3 billion base pairs of DNA per cell. Prior to cell division, that vast amount of genetic...
Mismatch Repair01:36

Mismatch Repair

Overview
Nucleotide Excision Repair01:08

Nucleotide Excision Repair

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Nucleotide Excision Repair01:08

Nucleotide Excision Repair

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Related Experiment Video

Updated: Jun 3, 2026

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen
11:32

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen

Published on: May 24, 2017

S1 nuclease protection mapping.

D R Smith1

  • 1Molecular Neurobiology Laboratory, Institute of Molecular and Cell Biology, National University of Singapore, Republic of Singapore.

Methods in Molecular Biology (Clifton, N.J.)
|March 11, 2011
PubMed
Summary
This summary is machine-generated.

S1 nuclease mapping precisely identifies transcription start sites and intron-exon junctions. This established molecular biology technique requires detailed gene sequence information for accurate results.

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Amplification, Next-generation Sequencing, and Genomic DNA Mapping of Retroviral Integration Sites
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Last Updated: Jun 3, 2026

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen
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Amplification, Next-generation Sequencing, and Genomic DNA Mapping of Retroviral Integration Sites
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Amplification, Next-generation Sequencing, and Genomic DNA Mapping of Retroviral Integration Sites

Published on: March 22, 2016

Area of Science:

  • Molecular Biology
  • Genetics
  • Biochemistry

Background:

  • S1 nuclease mapping is a refined technique based on the Berk and Sharp method.
  • Accurate gene structure and sequence data are essential for S1 nuclease mapping.

Purpose of the Study:

  • To accurately map transcription start sites.
  • To map intron-exon junctions within gene sequences.

Main Methods:

  • Utilizing S1 nuclease digestion to identify RNA-DNA hybrid structures.
  • Analyzing protected DNA fragments to determine transcription start sites.
  • Requires detailed knowledge of the first exon and upstream sequences.

Main Results:

  • S1 nuclease mapping precisely locates transcription start sites.
  • The method can also identify intron-exon boundaries.
  • Combined with primer extension, it offers unambiguous start site identification.

Conclusions:

  • S1 nuclease mapping is a powerful tool for analyzing gene structure.
  • It provides accurate localization of transcriptional elements.
  • Complementary techniques enhance its diagnostic capabilities.