What would analyzing colon cancer data look like using our latest NGS features? It would look a lot like this: Next Gen data is equally easy to analyze with Sequencher thanks to its host of integrated DNA-Seq Tools. Sequencher’s feature list doesn’t end with Sanger data.
Instead of combing through each trace peak, you can click one button and have all of the heterozygous bases found and flagged. This feature allows you to set your secondary trace call threshold, what happens to the base call, and automatically marks the heterozygous bases in the contig. Single Nucleotide Polymorphisms are automatically called and clearly displayed in the table, but what about a heterozygote? Sequencher brings in yet another proprietary feature, Calling Secondary Peaks. Below is a screenshot showing an MSH2 analysis in the Variance Table. All four panes are linked: clicking on a base in one will highlight your selection in all four. Using the Review Mode you can simultaneously view the Variance Table, the contig alignment, the corresponding chromatogram traces, and the Translated Variance Table. This table empowers you to quickly and accurately find all of the variants in your data. Once the alignment is complete, you’ll have access to one of Sequencher’s most powerful features, the Variance Table. Choices range from a simple majority rule to a rigorous forensic standard. Sequencher gives you several options for how the resulting consensus bases are called. You also have the option to adjust the parameters for each algorithm and save them as a template, saving you time on the next project. Each one is tuned for varying levels of sequence quality and genetic variation. Sequencher has three different alignment algorithms for assembling Sanger data. You’ll be amazed at the plethora of tools available, including proprietary algorithms you won’t find anywhere else. The feature list that Sequencher offers for analyzing Sanger data is robust.
#Sequencher software
One of the earliest studies linking the Human Mutator Gene Homolog MSH2 to colon cancer featured Sequencher as the software of choice.
Sequencher’s powerful algorithms and ease of use have made it a staple for genetic researchers all over the world. Researchers have been finding variants and mutations using Sequencher software for a long time.
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