. 2015 Oct 10;43(18):e115. doi: 10.1093/nar/gkv560

Table 1. SILNAS versus Metabolic Labeling.

	SILNAS	Metabolic labeling^a	Explanation/comment
Method of Isotope labeling	genetic engeneering-based in vitro labeling	cell culture-based in vivo (metabolic) labeling
PTM in a reference RNA	no	yes	Metabolically labeled RNA undergoes PTMs in the cell
Detection of PTM	data dependent	prediction of MS shift reqired
Detection of pseudouridine	shift of retention time in LC/chemical modification, e.g. cyanoethylation	metabolic labeling in the presence of 5,6-D₂ uridine
Quantitation of PTM	absolute quantitation (to estimate the absolute stoichimetry of PTM )	relative quantitaion (to estimate the relative changes in PTM)
Comprehensive PTM analysis	possible	difficult	In vivo labeling method cannot detect "unknown" PTMs with unpredictable MS shifts

^aAccording to the references (28) and (29).