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One extremely important area that NextGen is perfect for is rare mutation detection.
Unfortunately, there is little available in terms of packages that can be plugged into NextGen data to search for and detect rare mutations (especially over the large error background of NextGen).
We've been working on developing a group of mixtures of wild type and mutant sequences plugged into pUC57 and are currently analyzing these on as many different NextGen platforms as possible (454, Illumina and SOLID). However, once the data is generated everyone appears stymied about how to analyze it.
Any bioinformatics folks out there working on this problem? Any suggestions.
Unfortunately, there is little available in terms of packages that can be plugged into NextGen data to search for and detect rare mutations (especially over the large error background of NextGen).
We've been working on developing a group of mixtures of wild type and mutant sequences plugged into pUC57 and are currently analyzing these on as many different NextGen platforms as possible (454, Illumina and SOLID). However, once the data is generated everyone appears stymied about how to analyze it.
Any bioinformatics folks out there working on this problem? Any suggestions.