Table 1 Strengths and weaknesses of -omic techniques
Technique | Advantages | Disadvantages |
|---|---|---|
RNA-seq | - Established protocols - Many commercially available kits - Captures both translated and non-translated regions of RNA | - mRNA abundance does not always correlate with protein abundance - Expense and turn around time |
Ribosome Footprinting (Ribo-seq) | - Global view of all translated mRNA - Nucleotide/codon-level resolution - Identifies unique genomic sites: frameshifts, splice isoforms, ribosome pause sites | - Technically more difficult - Time-consuming post-sequencing analysis - Expense |
Proteomic LC-MS | - Represents net result of transcriptional and translational regulation - Deconvolutes complex protein mixtures - Simple to gather intra- and extracellular protein data | - Typically identifies fewer genes than nucleic acid-based tools - No individual method to separate all proteins |
Small Molecule LC-MS | - Measures end product of enzymatic activity - Standards can be used for simple quantitation | - Prior knowledge of elution time and exact mass helpful - Different separation techniques for classes of molecules |