Assessment of Redundancy and Full-Length Rate of Full-Length Enriched cDNA Libraries

Collection of full-length genes requires libraries with full-length cDNA insert, large-scale sequencing, library assessment, and high-speed sequence clustering. Here we focus on computational methods, such as newly developed computer programs, since our experimental methods had been published previously. Our purpose is the collection of full-length cDNAs, therefore the proportion of full-length inserts in each library is an important issue. Predicting whether a clone contains coding sequence is a necessary step in library assessment. We would like to collect all cDNA clones as quickly as possible. Using sequencing of the 3’ ends of the inserts, we monitor the rate at which novel genes are identified in the library. If this rate declines, we switch to the next library. Non-redundant clones are generated by using previously prepared libraries, from which the drivers for the libraries subtraction process is prepared, which removes known genes from the new libraries. 1st strand cDNA for these libraries were primed with oligo dT containing primer. There are possibility that it happens to miss-prime with A rich region instead of poly A tail. We estimated internal priming rate and redundancy of these libraries. In this issue, we report result of this analysis.