SoftGenetics - Software PowerTools for Genetic Analysis
 
       

 

Automated Fragile X Analysis of Triplet CGG Repeats & Percent Methylation

Completely integrated analysis from genotyping through reporting provides:

  • Faster, reduces analysis time by up to 50%
  • Reduced Errors, no data transfer
  • Accurate Fragile X Analysis
  • Single & Multi-color Analysis capabilities

Fragile X syndrome (FXS) is caused by expansions of a CGG triplet repeat in the FMR1 gene on the X chromosome; similar to trinucleotide expansions associated with other diseases such as Huntington's disease and myotonic dystrophy. In studies of FXS, the number of repeats and methylation status of the gene are associated with a constellation of disorders that impact a broad range of ages and populations. Advances in PCR-methods allow researchers to directly determine repeat length and methylation status using a two-color PCR approach. GeneMarker® software is compatible with data from Asuragen®-AmplideX® or custom chemistries, output files from all major capillary electrophoresis instruments, windows® XP - 8 OS, for rapid and accurate analysis of large volumes of single dye or two dye data associated with FXS. The linked Fragile X application automatically coordinates edits in Control and Digestion channels for two-dye projects and performs repetitive calculations; converting fragment size to repeat length and calculating percent methylation. Analysis parameters are easily customized to fit the SOP for the laboratory; with automated calculation of Correction Factors using a control sample with fragments of known CGG repeat length or a .txt file with the CGG repeat and bp size. Reporting options include .xls, .txt files of result tables and image files of individual sample reports, and color-coded project summary reports.

 

Review GeneMarker® Fragile X Analysis Webinar
Read GeneMarker® Fragile X Application Note

 

 

Figure 1: Final sample report from two -dye methylation chemistry includes: Header with details from user management and analysis parameters, Conclusion/Authorization box, Electropherogram and Report Table. The report table contains the sample metrics for the digestion control and reference fragment, the calculated number of  triplet repeats, size of fragment in base pairs, peak height and calculated percent methylation for each fragment.

 

 

Figure 2: Final sample report from a single dye chemistry to calculate the number of CGG repeats for each fragment, including a similar Header, Conclusion/Authorization box, Electropherogram and Report Table with the calculated number of triplet repeats, size in bp and peak height for each fragment.

 

 

Figure 3: Parameters for Fragile X analysis are easily customized for single dye or two dye projects. Control samples with known repeat sizes can be selected from the drop-down menu; or a .txt file can be imported with the expected repeat and bp size for the application. Co and Mo factors are automatically calculated when the control sample is selected.

 

 

Figure 4: Project Summary report example; color coded for fragments that did not meet specified parameters.

 

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Email: info@softgenetics.com

 

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