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- Title
Primer3_masker: integrating masking of template sequence with primer design software.
- Authors
Kõressaar, Triinu; Lepamets, Maarja; Kaplinski, Lauris; Raime, Kairi; Andreson, Reidar; Remm, Maido
- Abstract
Summary: Designing PCR primers for amplifying regions of eukaryotic genomes is a complicated task because the genomes contain a large number of repeat sequences and other regions unsuitable for amplification by PCR. We have developed a novel k-mer based masking method that uses a statistical model to detect and mask failure-prone regions on the DNA template prior to primer design. We implemented the software as a standalone software primer3_masker and integrated it into the primer design program Primer3.
- Subjects
DNA primers; POLYMERASE chain reaction; EUKARYOTIC genomes; BIOCHEMICAL templates; NUCLEOTIDE sequencing
- Publication
Bioinformatics, 2018, Vol 34, Issue 11, p1937
- ISSN
1367-4803
- Publication type
Article
- DOI
10.1093/bioinformatics/bty036