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Related Experiment Video

Updated: Jul 29, 2026

CAPRRESI: Chimera Assembly by Plasmid Recovery and Restriction Enzyme Site Insertion
07:37

CAPRRESI: Chimera Assembly by Plasmid Recovery and Restriction Enzyme Site Insertion

Published on: June 25, 2017

NEBcutter: A program to cleave DNA with restriction enzymes.

Tamas Vincze1, Janos Posfai, Richard J Roberts

  • 1New England Biolabs, Inc., 32 Tozer Road, Beverly, MA 01915, USA.

Nucleic Acids Research
|June 26, 2003
PubMed
Summary

NEBcutter 1.0 is a web-based tool that analyzes DNA sequences for restriction enzyme cutting sites. It provides detailed reports, maps, and considers DNA methylation, offering flexible enzyme selection for researchers.

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Published on: May 6, 2020

Area of Science:

  • Bioinformatics
  • Molecular Biology
  • Genomics

Background:

  • Restriction enzymes are crucial tools in molecular biology for DNA manipulation.
  • Accurate identification of restriction enzyme sites is essential for various downstream applications.
  • Existing tools may lack comprehensive features or up-to-date information.

Purpose of the Study:

  • To introduce NEBcutter, a web server program for analyzing DNA sequences.
  • To provide a comprehensive report of restriction enzyme cleavage sites.
  • To offer advanced features such as methylation site identification and flexible enzyme selection.

Main Methods:

  • Development of a web server program (NEBcutter v1.0).
  • Integration with the Restriction Enzyme Database (REBASE) for daily updates.
  • Implementation of algorithms to identify restriction enzyme recognition sites and potential methylation effects.

Main Results:

  • NEBcutter accepts DNA sequences and generates detailed restriction enzyme digestion reports.
  • Outputs include restriction enzyme maps and theoretical digests.
  • Identifies sites affected by DNA methylation (e.g., Dam, Dcm).

Conclusions:

  • NEBcutter provides a valuable, up-to-date resource for analyzing restriction enzyme activity on DNA sequences.
  • The tool enhances experimental design by offering flexible enzyme choices and methylation status information.
  • Facilitates efficient DNA sequence analysis for molecular biology research.