A comparison of single molecule and amplification based sequencing of cancer transcriptomes.

ABSTRACT: The second wave of next generation sequencing technologies, referred to as single-molecule sequencing (SMS), carries the promise of profiling samples directly without employing polymerase chain reaction steps used by amplification-based sequencing (AS) methods. To examine the merits of both technologies, we examine mRNA sequencing results from single-molecule and amplification-based sequencing in a set of human cancer cell lines and tissues. We observe a characteristic coverage bias towards high abundance transcripts in amplification-based sequencing. A larger fraction of AS reads cover highly expressed genes, such as those associated with translational processes and housekeeping genes, resulting in relatively lower coverage of genes at low and mid-level abundance. In contrast, the coverag

SUBMITTER: Sam LT 

PROVIDER: S-EPMC3046973 | biostudies-literature | 2011 Mar

REPOSITORIES: biostudies-literature