A comparison between whole transcript and 3' RNA sequencing methods using Kapa and Lexogen library preparation methods.

ABSTRACT:

Background

3' RNA sequencing provides an alternative to whole transcript analysis. However, we do not know a priori the relative advantage of each method. Thus, a comprehensive comparison between the whole transcript and the 3' method is needed to determine their relative merits. To this end, we used two commercially available library preparation kits, the KAPA Stranded mRNA-Seq kit (traditional method) and the Lexogen QuantSeq 3' mRNA-Seq kit (3' method), to prepare libraries from mouse liver RNA. We then sequenced and analyzed the libraries to determine the advantages and disadvantages of these two approaches.

Results

We found that the traditional whole transcript method and the 3' RNA-Seq method had similar levels of reproducibility. As expected, the whole transcript meth

SUBMITTER: Ma F 

PROVIDER: S-EPMC6323698 | biostudies-literature | 2019 Jan

REPOSITORIES: biostudies-literature