Table 3.

Examples of disagreements between SILAC classification and our predictions

Accession	Name	SILAC classification	PNAC classification	Experimental observations from literature
NP_006588	HSPA8	Non-nucleolar (highly cytoplasmic)	Nucleolar-cytoplasmic	Usually cytoplasmic but accumulates in nucleoli after heat-shock [43,44]
NP_001013	RPS19	Non-nucleolar (highly cytoplasmic)	Nucleolar-cytoplasmic	Ribosomal protein which accumulates in the nucleolus [45]
NP_919223	HNRNPA3	Non-nucleolar (mainly nucleoplasmic)	Nucleolar-enriched	The Human Proteome Atlas finds it in the nucleolus, nucleus and cytoplasm [46]
NP_002120	HMGB2	Non-nucleolar (mainly cytoplasmic but also nucleoplasmic)	Nucleolar-nucleoplasmic	The Human Proteome Atlas finds it to be strongly nucleolar [46]
NP_061185	RCC2	Mainly nucleoplasmic	Nucleolar-nucleoplasmic	Annotated in Uniprot as nucleolar, cytoplasmic and centromere
NP_002408	Antigen KI-67	Highly enriched in nucleolus	Nucleolar-nucleoplasmic	Annotated in Uniprot as predominantly perinucleolar in G1 and in later phases predominantly localised in the nuclear matrix [30]