Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods.

ABSTRACT:

Background

Standard RNAseq methods using bulk RNA and recent single-cell RNAseq methods use DNA barcodes to identify samples and cells, and the barcoded cDNAs are pooled into a library pool before high throughput sequencing. In cases of single-cell and low-input RNAseq methods, the library is further amplified by PCR after the pooling. Preparation of hundreds or more samples for a large study often requires multiple library pools. However, sometimes correlation between expression profiles among the libraries is low and batch effect biases make integration of data between library pools difficult.

Results

We investigated 166 technical replicates in 14 RNAseq libraries made using the STRT method. The patterns of the library biases differed by genes, and uneven library yields we

SUBMITTER: Katayama S 

PROVIDER: S-EPMC6693229 | biostudies-literature | 2019 Aug

REPOSITORIES: biostudies-literature