PrimerDigital

Webtools for PCR, qPCR, in silico PCR and oligonucleotide

PCR primers design

Designing any kind of PCR primers for standard, long distance, inverse, multiplex, real-time, bisulphite modification assays, group-specific and unique PCR analysis.
In silico (virtual) PCR primers and probes search - prediction of probable PCR products and search of potential mismatching location of the specified primer(s) or probe(s).
Analyzes different features of multiple primers simultaneously, e.g. Tm, GC content, dimer formation and else.
The software also includes tools for identifying simple sequence repeat (SSR) loci; automatically SSR loci detection and direct PCR primers design.

Oligomer

Comprehensive primer test, Tm calculation, PCR efficiency, dimers detection and dilution and resuspension calculator.
Tool calculates the melting temperature for standard and degenerate oligonucleotides including LNA and other modifications. It can predict dimer formation and provides a dilution and resuspension calculator for stocks. Melting temperature calculations are based on nearest neighbour thermodynamic parameters.

PrimersList

Analyzes different features of multiple primers simultaneously, e.g. Tm, GC content, dimer formation and else; optimal Ta (temperature of annealing) calculation for all given primers.
The “PrimerList” tool provides analyses for a set of primers with prediction of oligonucleotide properties, self- and cross-dimer detection, and calculation of their melting temperatures.

PCR reaction setup calculators

PCR and qPCR reaction setup calculator; tool for planning PCR and qPCR reactions, mixing solutions.

Universal dilution and mixing two solutions calculator

Dilution calculator, applicable for mixing two solutions with various concentrations (molar or %, or other), as well as for various pH or mixing stock solution with solvent like water.

Download WebTools on your desktop

All java applications FastPCR software compatible and they give the same result.

Java application needs a Java Virtual Machines (Sun) (the Java Runtime Environment (JRE) or complete Java Development Kit (JDK), for programmers only, can be downloaded from java.com).

Contact
Dr. Ruslan Kalendar
Viikinkaari 1 (P.O.Box 65) Biocenter 3
00014 University of Helsinki
Tel: +358-9-19158869
fax: +358-9-19159930
ruslan.kalendar*helsinki.fi

Copyright
The copyrights and other rights to the materials on the PrimerDigital website are owned by PrimerDigital. You are authorized to view, download and reproduce the materials at this website only for your internal information purposes provided that you: (i) retain all notices contained in the original materials; (ii) only use images with surrounding text relating to the images; and (iii) include the following copyright notice:

Copyright © 2010 Ruslan Kalendar,PrimerDigital  All rights reserved.

These computer programs are protected by copyright law and international treaties. Unauthorized reproduction or distribution of this program, or any portion of it, may be result in severe civil and criminal penalties, and will be prosecuted to the maximum extent possible under law.

No transcoding: you are prohibited from using these softwares with a commercial software or hardware product ("commercial product") whose purpose is to "transcode" or convert applets content into an alternate programs. A commercial product is one that directly or indirectly generates revenue for its author and/or publisher.