MULTIPLE MEASUREMENT MODES FOR CONFIDENCE FROM CORROBORATIVE EVIDENCE: LINKING TRANSCRIPTOME AND PROTEOME MEASUREMENTS USING RIBOSOME FOOTPRINTS

 

Sarah A. Munro, Marc L. Salit

 

Biochemical Science Division, Material Measurement Laboratory, National Institute of Standards and Technology, Gaithersburg MD 20899

 

Ribosome profiling, a method based on ultra-high-throughput sequencing, enables identification of sites of active translation on mRNA, "ribosome footprints". This method may provide a linking layer of evidence between transcriptome and proteome data – critical mutual confirmation. Publicly available data sets from Saccharomyces cerevisiae cultures grown in both amino acid-deficient and rich culture medium were evaluated for corroboration amongst the three functional genomics layers (RNA-Seq gene expression, RNA-Seq ribosome footprints, and LC-MS proteomics). Mutual support of the layers was interrogated by annotating a comprehensive biochemical reaction network model of yeast metabolism with the degree of corroboration. The ability to gauge measurement confidence with this analysis shows the value of integrating top-down –omic data sets with bottom-up biochemical reaction networks.