PRIMEGENS -- robust and efficient design of gene-specific probes for microarray analysis
What you can do:
Select gene-specific fragments and then design PCR primer pairs to amplify fragments suitable for microarray probes.
Highlights:
- PRIMEGENS is developed for the automatic design of PCR primers using DNA fragments that are specific to individual open reading frames (ORFs).
- It first carries out a BLAST search for each target ORF against all other ORFs of the genome to quickly identify possible homologous sequences.
- Then it performs optimal sequence alignment between the target ORF and each of its homologous ORFs.
- Finally, PRIMEGENS uses the sequence alignments to select gene- specific fragments, and then feeds the fragments to the Primer3 program to design primer pairs for PCR amplification.
- This method is very efficient and reliable for designing specific probes for microarray analysis.
Keywords:
- PCR primer design tool
- ORF amplification tool
- gene specific probe design tool
- microarray probe design tool
Literature & Tutorials:
This record last updated: 08-07-2006