Table 3 |
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|
Statistics for the current S. cerevisiae PeptideAtlas |
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| Plimit = 0.9, Nobs > 0 |
Plimit = 0.95, Nobs > 0 |
Plimit = 0.99, Nobs > 0 |
Plimit = 0.9, Nobs > 1 |
Plimit = 0.95, Nobs > 1 |
Plimit = 0.99, Nobs > 1 |
|
|
|
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| # Experiments |
47 |
47 |
47 |
47 |
47 |
47 |
| # MS runs |
2,579 |
2,579 |
2,579 |
2,579 |
2,579 |
2,579 |
| # MS/MS |
4.9 M |
4.9 M |
4.9 M |
4.9 M |
4.9 M |
4.9 M |
| # MS/MS with P ≥ Plimit |
600,960 |
565,217 |
472,234 |
586,708 |
552,434 |
461,827 |
| # Distinct peptides with P ≥ Plimit |
36,133 |
33,377 |
27,909 |
21,840 |
21,646 |
20,251 |
| # Distinct peptides with perfect SGD alignment |
35,434 |
32,790 |
27,499 |
21,469 |
21,281 |
19,942 |
| # SGD ORFs seen in PeptideAtlas |
4,249 (62%) |
3,903 (57%) |
3,476 (51%) |
3,069 (45%) |
3,049 (45%) |
2,935 (43%) |
| # SGD ORFs unambiguously seen in PeptideAtlas |
3,980 (59%) |
3644 (54%) |
3,224 (47%) |
2,795 (41%) |
2,778 (41%) |
2,672 (39%) |
|
|
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|
The percentage of SGD ORFs seen in PeptideAtlas is shown as a function of lower limit PeptideProphet probabilities and number of times peptide has been observed above lower limit. Using the most generous parameters of the build, we see 62% of the SGD ORFs. As an aside, 68% of SGD ORFs have Systematic gene names and we observe 76% of those. This is comparable to the 83% of ORFs with Systematic gene names that Ghaemmaghami et al. [14] observed in their protein expression study. |
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|
King et al. Genome Biology 2006 7:R106 doi:10.1186/gb-2006-7-11-r106 |
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