Microsatellite Instability (MSI) Analysis Software

Automated calling of MSI research markers and samples

The Applied Biosystems TrueMark MSI Analysis Software is designed specifically for the TrueMark MSI Assay to enable greater ease of analysis and reporting.

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Simple, automated software for MSI analysis using the TrueMark MSI research Assay

TrueMark MSI Analysis Software is a desktop-based application that takes the fragment analysis files from the TrueMark MSI Assay generated on the SeqStudio or 3500 Series genetic analyzers and provides an easy-to-interpret analysis and report of the results. The software provides experimental QC measurements that allow users to quickly determine which samples provided accurate data and which should to be rerun. In addition, the software returns the stability state of each of the loci analyzed, as well as a microsatellite instability (MSI) call that considers all the loci. Finally, TrueMark MSI Analysis Software makes use of an extensive collection of normal samples to calibrate the range of normal lengths observed at these loci. This information can be used to analyze samples without the need to run normal control samples concurrently. This groundbreaking feature helps reduce the amount of time, material, and cost typically required for MSI analysis.

Features of the TrueMark MSI Analysis Software include:

Automated calling of markers and samples
Straightforward QC and review steps
Simple review of individual samples and batches
Easy workflow for selecting markers to include in analysis and making manual calls when needed
Fast export of results into multiple formats (PDF, CSV, VCF)
Compatible with Oncomine Reporter to produce clear and concise reports that summarize relevant research biomarkers

SeqStudio Flex users need to download the MSI software and a software patch. If you already have the MSI software only the patch is required.

Download for new MSI analysis users ›
Download software patch only ›

Click image to enlargeFigure 1. The TrueMark MSI Analysis Software home screen, showing one batch using eight specimens. This example depicts both Negative control (Neg) and No Template Control (NTC) special sample types in the Specimen ID column, different overall call values in the Overall Call column, an example of a warning review flag (yellow triangle) in the Review Flag column, and examples of empty, match, and no-call status in the Well Pair Status column.

TrueMark MSI Analysis Software MSI H Sample

Click image to enlargeFigure 2. Custom algorithms in the TrueMark MSI Analysis Software analyze the MSI status and return an overall call that considers all loci. The status at each locus can be examined and modified manually if needed. The software also compares the STR loci between tumor and normal samples to verify a match. Although concurrent comparison to normal gDNA is possible, it is not required since the software was designed to be able to analyze tumor-only samples.

Click image to enlargeFigure 3. The final PDF report produced by TrueMark MSI Analysis Software is easy to interpret and can be used to summarize your MSI research analysis results.

Resources

For Research Use Only. Not for use in diagnostic procedures.

TrueMark MSI Analysis Software for MSI Data Analysis

Automated calling of MSI research markers and samples

Simple, automated software for MSI analysis using the TrueMark MSI research Assay

Features of the TrueMark MSI Analysis Software include:

Resources