Table 3.
OpenProt (v1.6) evidence collection output
| Species | Conservation evidence | Translation evidence (Ribo-seq) | Protein evidence (MS) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Sp # | Ref # | II_ # | IP_ # | St # | Ref # | II_ # | IP_ # | St # | Ref # | II_ # | IP_ # | |
| H. sapiens | 9 | 116 295 | 45 938 | 217 897 | 69 | 31 453 | 6912 | 9738 | 95 | 120 925 | 2446 | 40 883 |
| P. troglodytes | 9 | 73 137 | 13 315 | 131 321 | 0 | N/A | N/A | N/A | 2 | 25 821 | 15 | 360 |
| M. musculus | 9 | 78 193 | 25 867 | 98 047 | 40 | 23 740 | 3309 | 5908 | 40 | 66 875 | 236 | 4458 |
| R. norvegicus | 9 | 49 994 | 6012 | 77 768 | 3 | 16 205 | 996 | 1731 | 8 | 21 210 | 16 | 398 |
| B. taurus | 9 | 64 866 | 7148 | 83 993 | 0 | N/A | N/A | N/A | 4 | 20 120 | 6 | 80 |
| O. aries | 9 | 30 091 | 6223 | 73 034 | 0 | N/A | N/A | N/A | 4 | 8618 | 22 | 104 |
| D. rerio | 9 | 58 386 | 6826 | 26 669 | 5 | 11 186 | 490 | 299 | 8 | 32 286 | 27 | 220 |
| D. melanogaster | 9 | 13 567 | 757 | 477 | 3 | 5370 | 147 | 243 | 4 | 11 560 | 24 | 168 |
| C. elegans | 9 | 13 182 | 1064 | 450 | 5 | 12 796 | 396 | 196 | 6 | 13 332 | 38 | 96 |
| S. cerevisiae S288c | 9 | 2895 | 5 | 34 | 6 | 5429 | 4 | 269 | 6 | 4191 | 0 | 44 |
Sp = number of species evaluated for orthology relationships (not counting the queried species); St = number of studies re-analysed by OpenProt; Ref = currently annotated CDS (RefORF); II_ = novel isoforms of known CDS; IP_ = novel CDS from alternative ORF (AltORF); N/A = when no dataset has been re-analysed for this species yet (OpenProt release 1.2). Conservation evidence = all proteins with at least one ortholog in at least one species. Translation evidence = all ORFs detect in at least one detection by PRICE analysis of Ribo-seq data. Protein evidence = all proteins with at least one unique peptide in at least one study.