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] |