Beacon designer
Encyclopedia
Beacon Designer designs highly specific an efficient primers and probes for real time PCR (polymerase chain reaction) assays. It is compatible to work on Windows as well as on Mac. The software currently supports the following real time PCR chemistries for efficient primer and probe design.
1. SYBR Green
2. TaqMan
3. Molecular beacon
4. HRMA Primers
5. Scorpions
6. FRET
7. LNA (Locked nucleic acid)
8. NASBA
Beacon Designer program has built in support for homology avoidance using the standard web BLAST service or the set-up of a desktop BLAST feature for identification of regions that are significantly cross homologous with the target gene sequence. The software designs real time pcr primers and probes for complex differential gene expression and allele discrimination assays. Avoidance of the cross homology renders specificity to the primers in question and they are highly targeted and only amplify the intend sequence and no other targets.
Beacon Designer has been used in workshops and conferences related to real time PCR study as a reference software.
The author company, Premier Biosoft
has also launched a simple version for evaluation of oligos for real time PCR primers and probes (support limited to TaqMan and SYBR Green primers) by the name Beacon designer free version.
1. SYBR Green
2. TaqMan
TaqMan
TaqMan probes are hydrolysis probes that are designed to increase the specificity of real-time PCR assays. The method was first reported in 1991 by researchers at Cetus Corporation, and the technology was subsequently developed by Roche Molecular Diagnostics for diagnostic assays and by Applied...
3. Molecular beacon
Molecular beacon
Molecular beacons are oligonucleotide hybridization probes that can report the presence of specific nucleic acids in homogenous solutions. The terms more often used is molecular beacon probes. Molecular beacons are hairpin shaped molecules with an internally quenched fluorophore whose fluorescence...
4. HRMA Primers
5. Scorpions
6. FRET
7. LNA (Locked nucleic acid)
Locked nucleic acid
A locked nucleic acid , often referred to as inaccessible RNA, is a modified RNA nucleotide. The ribose moiety of an LNA nucleotide is modified with an extra bridge connecting the 2' oxygen and 4' carbon. The bridge "locks" the ribose in the 3'-endo conformation, which is often found in the A-form...
8. NASBA
NASBA (molecular biology)
Nucleic acid sequence based amplification is a method in molecular biology which is used to amplify RNA sequences.NASBA was developed by J Compton in 1991, who defined it as "a primer-dependent technology that can be used for the continuous amplification of nucleic acids in a single mixture at one...
Beacon Designer program has built in support for homology avoidance using the standard web BLAST service or the set-up of a desktop BLAST feature for identification of regions that are significantly cross homologous with the target gene sequence. The software designs real time pcr primers and probes for complex differential gene expression and allele discrimination assays. Avoidance of the cross homology renders specificity to the primers in question and they are highly targeted and only amplify the intend sequence and no other targets.
Beacon Designer has been used in workshops and conferences related to real time PCR study as a reference software.
The author company, Premier Biosoft
Premier Biosoft
PREMIER Biosoft International is a California, United States based bioinformatics company. The company specializes in developing software for use in life science research...
has also launched a simple version for evaluation of oligos for real time PCR primers and probes (support limited to TaqMan and SYBR Green primers) by the name Beacon designer free version.