FastPCR: An in silico tool for fast primer and probe design and advanced sequence analysis

Genomics (2017)
Ruslan Kalendar, Bekbolat Khassenov, , Yerlan Ramankulov, Olga Samuilova, Konstantin I. Ivanov.
Available online 12 May 2017
DOI: 10.1016/j.ygeno.2017.05.005

Abstract

Polymerase chain reaction (PCR) is one of the most important laboratory techniques used in molecular biology, genetics and molecular diagnostics. The success of a PCR-based method largely depends on the correct nucleic acid sequence analysis in silicoprior to a wet-bench experiment. Here, we report the development of an online Java-based software for virtual PCR on linear or circular DNA templates and multiple primer or probe search from large or small databases. Primer or probe sensitivity and specificity are predicted by searching a database to find sequences with an optimal number of mismatches, similarity and stability. The software determines primer location, orientation, efficiency of binding and calculates primer melting temperatures for standard and degenerate oligonucleotides. The software is suitable for batch file processing, which is essential for automation when working with large amounts of data. The online Java software is available for download at http://primerdigital.com/tools/pcr.html.

Accession numbers for the sequences resulting from this study:

EU140956

EU177767

EU867815

EU882730

FJ975775-FJ975780

HM481419

HM481420

KC686837–KC686839

KM262797

ПОДЕЛИТЬСЯ

О нас

Республиканское государственное предприятие «Национальный центр биотехнологии» Комитета науки Министерства образования и науки Республики Казахстан – ведущий биологический научный центр страны, реализующий государственную политику поддержки и развития биотехнологической отрасли - создан Указом Президента Республики Казахстан в 1993 г.

Последние новости

Подписаться

Подпишитесь на новости