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Pick primers from a DNA sequence.

Tutorial and training materials by OpenHelix

Learn to use Primer3, a handy tool for primer design. Oligonucleotide primers are widely used in molecular biology applications, and Primer3 offers many ways to identify appropriate oligos for your research. Simple, quick primer designs are possible--as well as options for more detailed primer characteristics which are available to fine tune your primer choices.
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You'll learn:

  • simple, basic primer selection
  • to access more detailed primer design features, and check for mis-priming in your template
  • to find the Primer3 source code, which can be used by programmers for many applications


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Recent BioMed Central research articles citing this resource

Jansson Eeva et al., Living on the edge: reconstructing the genetic history of the Finnish wolf population Phylogenetics and phylogeography. BMC Evolutionary Biology (2014) doi:10.1186/1471-2148-14-64

Xiao Fengxia et al., Genome instability in blood cells of a BRCA1 + breast cancer family Genetics, genomics and epigenetics. BMC Cancer (2014) doi:10.1186/1471-2407-14-342

Edmonson Catherine et al., Altered glial marker expression in autistic post-mortem prefrontal cortex and cerebellum. Molecular Autism (2014) doi:10.1186/2040-2392-5-3

Attard Agnès et al., Transcriptome dynamics of Arabidopsis thaliana root penetration by the oomycete pathogen Phytophthora parasitica Eukaryote microbial genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-538

Delventhal Rhoda et al., Ectoparasitic growth of Magnaporthe on barley triggers expression of the putative barley wax biosynthesis gene CYP96B22 which is involved in penetration resistance Plant-biotic interactions. BMC Plant Biology (2014) doi:10.1186/1471-2229-14-26

More about the resource:

The Primer3 tool, which is used for the design of primers (oligos) for molecular biology research, was developed by Steve Rozen and Helen Skaletsky at MIT. This software helps researchers to generate PCR primers, sequencing primers, hybridization oligos--or for your short oligonucleotide fragment needs of almost any sort. This tool is freely available to the public, and can be found not only at the MIT Whitehead Institute website, but installed locally in many other institutions and companies as well. All of these Primer3 sites include software developed by the Whitehead Institute for Biomedical Research.


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