
Microsatellite
Analysis with Linked Pedigree
Microsatellite Analysis
(SSR,
STR,
VNTR,
MLVA)
Microsatellites
(also known as simple-sequence-repeats,
simple-tandem-repeats, variable-nucleotidetandem-repeats
in eukaryote research; and Multiple-Loci-VNTR-Analysis
in microbial research) are widely
used to determine the genotype of
organisms based on naturally
occurring variation. With eukaryotes,
the genotypes are used in areas like
population
genetics, forensics,
agriculture advancement. With bacteria
and other microbes, MLVA is used for
population genetics, to study transmission
routes, sources
of infection and the impact of
vaccination and use of antibiotics
on antibiotic
resistance. GeneMarker software
decreases analysis set-up time, in
comparison to GeneMapper®,
Genotyper™, GeneScan®,
CEQ™
Fragment Analysis Software, through
automated correction of common genotyping
problems including saturated and pull-up
peaks, instrument spikes and stutter
peaks. A flexible panel editor provides
custom
panels required for microsatellite
analysis. GeneMarker® software's
automated Run
Wizard is designed to make analysis
quick, easy, and accurate; compatible
with all ABI
PRISM®, Beckman
CEQ™ or MegaBACE™
genetic analyzers. Visit our webinar
for additional details on Microsatellite
Analysis Tools in GeneMarker Software.
GeneMarker software is equipped with
several data processing options that
make Microsatellite analysis more
accurate:
- Saturation Correction: Analysis
of saturated data points by creating
a synthetic peak based upon the
peak shape before and after saturation.
- Baseline Subtraction: The software
removes the baseline so that the
Y axis is above the noise level.
- Pull-up Correction: This function
removes peaks caused by wavelength
bleeding.
- Spike Correction: The software
automatically removes peaks from
voltage spikes caused by micro-
air bubbles or debris in the laser
path.
- Stutter Peak Correction: The software
automatically filters for stutter
peaks caused by PCR slippage.
Linked Pedigree Tool
The user can either open an existing
pedigree file of type .ped or create
a new pedigree file in GeneMarker
software's pedigree tool. The pedigree
chart is designed to aid identification
of inheritance patterns and abnormalities.
All individuals in the pedigree with
sample files are directly linked to
the corresponding electropherograms
with a mouse click, and individuals
with illogical or abnormal allele
calls are highlighted in red. The
link between the pedigree and the
electropherograms displaying allele
calls for each marker make analysis
makes analysis quick and efficient.

Pedigree chart showing
inheritance conflicts in Family 5005
Read the Plant Animal Genome Poster
for additional Relationship Testing
Tools.
Download
Microsatellite Analysis Application
Note
View
the Microsatellite Analysis Webinar
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Research use only (RUO)