Improving small RNA-seq by using a synthetic spike-in set for size-range quality control together with a set for data normalization.

ABSTRACT: There is an increasing interest in complementing RNA-seq experiments with small-RNA (sRNA) expression data to obtain a comprehensive view of a transcriptome. Currently, two main experimental challenges concerning sRNA-seq exist: how to check the size distribution of isolated sRNAs, given the sensitive size-selection steps in the protocol; and how to normalize data between samples, given the low complexity of sRNA types. We here present two separate sets of synthetic RNA spike-ins for monitoring size-selection and for performing data normalization in sRNA-seq. The size-range quality control (SRQC) spike-in set, consisting of 11 oligoribonucleotides (10-70 nucleotides), was tested by intentionally altering the size-selection protocol and verified via several comparative experiments. We demon

SUBMITTER: Locati MD 

PROVIDER: S-EPMC4538800 | biostudies-literature | 2015 Aug

REPOSITORIES: biostudies-literature