Spliced synthetic genes as internal controls in RNA sequencing experiments.

ABSTRACT: RNA sequencing (RNAseq) can be used to assemble spliced isoforms, quantify expressed genes and provide a global profile of the transcriptome. However, the size and diversity of the transcriptome, the wide dynamic range in gene expression and inherent technical biases confound RNAseq analysis. We have developed a set of spike-in RNA standards, termed ‘sequins’ (sequencing spike-ins), that represent full-length spliced mRNA isoforms. Sequins have an entirely artificial sequence with no homology to natural reference genomes, but align to gene loci encoded on an artificial in silico chromosome. The combination of multiple sequins across a range of concentrations emulates alternative splicing and differential gene expression, and provides scaling factors for normalization between samples. W

ORGANISM(S): Homo sapiens

SUBMITTER: Simon Hardwick 

PROVIDER: E-GEOD-77072 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress