Table 1. Summary of widespread aggregation data sets analyzed in this work.
Dataset: description of the data used. References: references for the data. Species: species to which the data refers. Original #: number of data points listed in the original published set. # UniProt IDs: number of data points listed after conversion to UniProt ID; for human proteins, only the reviewed UniProt IDs are counted. # σu, # σf, # σuT: of those proteins in the # UniProt IDs column, the number for which the given score is available.
| Dataset | References | Species | Original # |
# UniProt IDs |
# σu | # σf | # σuT |
|---|---|---|---|---|---|---|---|
| Amyloids | (UniProt Consortium, 2012) | Human | 27 | 27 | 20 | 13 | 20 |
| Plaques (Co-aggregators) | (Liao et al., 2004) | Human | 26 | 26 | 26 | 18 | 26 |
| NFTs (Co-aggregators) | (Wang et al., 2005) | Human | 72 | 88 | 75 | 52 | 75 |
| Lewy bodies (Co-aggregators) | (Xia et al., 2008) | Human | 36 | 34 | 33 | 22 | 33 |
| Lewy bodies (Detected) | (Xia et al., 2008) | Human | 707 | 557 | 538 | 380 | 538 |
| Artificial β (Co-aggregators) | (Olzscha et al., 2011) | Human | 133 | 151 | 141 | 97 | 140 |
| Artificial β (Lysate) | (Olzscha et al., 2011) | Human | 3,055 | 3,032 | 2,778 | 1,858 | 2,758 |
| Ageing aggregators | (David et al., 2010) | Worm | 720 | 719 | 517 | 577 | 512 |
| Ageing aggregators | (Reis-Rodrigues et al., 2012) | Worm | 203 | 203 | 160 | 178 | 159 |
| Complexes | (Licata et al., 2012) | Human | 1,729 | 1,637 | – | 941 | – |
| Nuclear complexes | (Luc and Tempst, 2004) | Human | 604 | 630 | – | 319 | – |
| Nuclear proteome | (Ashburner et al., 2000; Huang et al., 2009) | Human | – | 1,942 | – | 1,942 | – |
| Membrane proteins | (Ashburner et al., 2000; Huang et al., 2009) | Human | – | – | 6,167 | 2,285 | 6,140 |