Genemapper.

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Presentation transcript:

Genemapper

Gene Mapper Software GeneMapper is a flexible genotyping software package that provides DNA sizing and quality allele calls for all Applied Biosystems electrophoresis-based genotyping systems. Perform analysis of many applications including amplified fragment length polymorphism (AFLP), loss of heterozygosity (LOH), microsatellite, and SNP genotyping

Steps Stem rust SSR PANEL co load 1 MARKERS KIT Stem rust SSR PANEL co load 1 MARKERS PgtCAT 4.2/ Pgest 49/ Pgest 225/ PgtCAA 149

Failed PCR

Non-specific PCR

Primer dimers

Pull ups

A+/A- hybrid

Stuttering

1 marker + Liz 500

1 marker

1 marker- 4 alleles

Configuring panels Defn Panel: A set of markers that can be loaded together Considerations: Load markers of different size lengths Distinguish different markers from those with overlapping size ranges by using dye labels Use more PCR prdt labeled with dyes of low emission intensity than dyes of high emission intensity. 6-FAM (blue), VIC (green) > NED (black) > PET (red) > LIZ (orange)(highest to lowest) Liz 500 is the size standard; range: 35 - 500 bp, 16 single- strand labeled fragments (35, 50, 75, 100, 139, 150, 160, 200, 250, 300, 340, 350, 400, 450, 490, & 500 bases).

Co loading strategy

Co loading strategy

Co loading strategy