OligoAnalyzer(IDT) Cool tool for oligo analysis. Features include analysis of hairpin, self-dimer, heter-dimer, and other basic parameters. http://biotools.idtdna.com/analyzer/Applications/O... Added: Wed Mar 24 2004, Hits: 10307, Reviews: 0Write review
Primer3(Whitehead Institute/MIT Center for Genome Research) Very popular primer design tool for designing primers for PCR, hybridization. http://frodo.wi.mit.edu/ Added: Sat Jul 20 2002, Hits: 9094, Reviews: 0Write reviewCached
(Long-Cheng Li, UCSF) A free online program for designing primers for methylation specific PCR (MSP) and bisulfite sequencing PCR. http://www.urogene.org/methprimer/ Added: Thu May 29 2003, Hits: 2679, Reviews: 0Write reviewCached
PCR Primer Designer
(GenScript) This online tool designs PCR primers for you. http://www.genscript.com/cgi-bin/tools/primer_gens... Added: Thu Feb 05 2009, Hits: 3757, Reviews: 0Write reviewCached
(Tiger Team Bioinformatics) PrimerCheck displays splice variants and the target location of PCR primers/probes. Optionally it can also display microarray probe target locations. http://www.tigerteamconsulting.com/SpliceCenter/Pr... Added: Mon Jun 08 2009, Hits: 2103, Reviews: 0Write reviewCached
(Current Protocol) Primer3Plus, an enhanced web interface to Primer3 http://www.bioinformatics.nl/cgi-bin/primer3plus/p... Added: Mon Jun 08 2009, Hits: 1869, Reviews: 0Write reviewCached
(Chang Bioscience) Primo online is a friendly PCR primer design tool. It reduces PCR noise by lowering the probability of random primering. Batch mode allows designing for multiple sequences. Users can also calculate the melting temperature using the nearest neighbor model. http://www.changbioscience.com/primo/primo.html Added: Tue Oct 08 2002, Hits: 3244, Reviews: 0Write reviewCached
The PCR Suite
(Van Baren MJ, Heutink P, Erasmus Medical Center) a collection of programs that interact with the Whitehead's Primer3 program. The original Primer3 program designs primersets for one sequence and it allows you to change almost every parameter. The PCR Suite has more stringent settings (to allow more working primersets) and a smaller range of parameters (because you won't change most of them anyway).
The suite consists of four programs:
Overlapping_Primers is for creating multiple overlapping PCR products in one sequence.
Genomic_Primers designs primers around exons in genomic sequence. All you need is a GenBank file containing your gene.
SNP_Primers designs primers around every SNP in a GenBank file.
cDNA_Primers designs primers around open reading frames. Simply upload a GenBank file containing your genes.
http://www.eur.nl/fgg/kgen/primer/index.html Added: Tue Mar 02 2004, Hits: 3145, Reviews: 0Write reviewCached