Comparison of Poly(A) capture versus Ribosomal RNA depletion methods for RNA-seq

ABSTRACT: Methods: RNA-sequencing was performed on matched samples obtained across several different gene expression measurement methods including: (a) fresh-frozen (FF) RNA samples by mRNA-seq, Ribo-zero and DSN and (b) FFPE samples by Ribo-zero and DSN. We also assayed the matched samples with Agilent microarray. RNA-seq data was compared on the rRNA-removal efficiency, genome profile, library complexity, coverage uniformity and quantitative cosinstency across protocols and with microarray data. Results: Compared to mRNA-seq, Ribo-zero provides equivalent percentage of rRNA component, genome-based mapped reads, and consistent quantification of transcripts. Moreover, Ribo-zero and DSN protocols achieve concordant transcript profiling in FFPE samples, and provide substantially more information on no

ORGANISM(S): Homo sapiens

SUBMITTER: Charles Perou 

PROVIDER: E-GEOD-51783 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress