Difference between revisions of "2018"
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Revision as of 19:54, 11 December 2018
Annotation Progress
WormBase GO Annotation Statistics as of December 5, 2018
Manual annotation statistics are summarized in Tables 1 - 3.
Total number of unique manual annotations: 52557 (+18.4% from 2017)
Total number of genes with manual annotations: 7850 (+4.5% from 2017)
Table 1: Summary of C. elegans Manual Biological Process Annotations
Numbers refer to total number of annotations; annotations in parentheses represent annotations with extensions.
Annotation Group | IMP | IGI | IDA | ISS | TAS | IEP | IPI | IC | NAS | ISM | ND | IBA | IKR | HEP | HMP | HGI | EXP |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
WormBase | 8031 (454) | 3208 (90) | 1132 (33) | 324 (1) | 105 | 108 (11) | 51 | 63 (10) | 22 | 2 | 2 | 0 | 2 | 189 | 0 | 0 | 0 |
UniProt | 3483 (831) | 2694 (508) | 218 (23) | 209 | 29 (3) | 23 | 2 (2) | 4 | 101 | 0 | 66 | 0 | 0 | 0 | 0 | 0 | 0 |
SynGO | 48 (37) | 69 (44) | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 10 |
CACAO | 18 | 1 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
BHF-UCL | 11 | 0 | 0 | 2 | 0 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
MGI | 4 | 0 | 6 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
HGNC | 0 | 0 | 0 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
GO_Central | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 12247 | 0 | 0 | 0 | 0 | 0 |
ParkinsonsUK-UCL | 10 (4) | 6 (3) | 11 | 2 (1) | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
CAFA | 2 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
SGD | 0 | 0 | 0 | 1 (1) | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
Totals | 11609 (1326) | 5978 (645) | 1372 (55) | 542 (3) | 134 (3) | 135 (11) | 53 (2) | 67 (10) | 123 | 2 | 68 | 12247 | 2 | 189 | 0 | 0 | 0 |
Table 2: Summary of C. elegans Molecular Function Annotations
Numbers refer to total number of annotations; annotations in parentheses represent annotations with extensions.
Annotation Group | IMP | IGI | IDA | ISS | TAS | IPI | IC | NAS | ISM | ND | IBA | ISO | IKR |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
WormBase | 172 (11) | 32 | 1899 (214) | 643 (7) | 33 | 1355 (5) | 21 (1) | 4 | 3 | 80 | 0 | 2 | 3 |
IntAct | 0 | 0 | 0 | 0 | 0 | 2238 (60) | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
UniProt | 117 (13) | 26 | 185 (9) | 231 (16) | 24 (1) | 511 (3) | 123 | 50 | 0 | 123 | 0 | 0 | 0 |
CACAO | 1 | 0 | 7 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
GO_Central | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 9803 | 0 | 1 |
HGNC | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
ParkinsonsUK-UCL | 0 | 0 | 0 | 0 | 0 | 2 (2) | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
CAFA | 1 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
Totals | 291 (24) | 58 | 2091 (223) | 876 (23) | 57 (1) | 4107 (70) | 144 (1) | 54 | 3 | 203 | 9803 | 2 | 4 |
Table 3: Summary of C. elegans Cellular Component Annotations
Numbers refer to total number of annotations; annotations in parentheses represent annotations with extensions.
Annotation Group | IMP | IGI | IDA | ISS | TAS | IPI | IC | NAS | ISM | ND | IBA | HDA | EXP |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
WormBase | 7 | 0 | 5622 (348) | 379 | 27 | 140 (3) | 49 | 7 | 4 | 12 | 0 | 545 (452) | 0 |
GO_Central | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 10565 | 0 | 0 |
UniProt | 80 (24) | 1 | 742 (104) | 219 | 20 | 1 | 16 | 47 | 0 | 116 | 0 | 0 | 0 |
MGI | 0 | 0 | 16 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ||
HGNC | 0 | 0 | 0 | 8 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ||
BHF-UCL | 0 | 0 | 7 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ||
CACAO | 0 | 0 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ||
Reactome | 0 | 0 | 0 | 0 | 8 | 0 | 0 | 0 | 0 | 0 | 0 | ||
SynGO | 29 | 0 | 89 (8) | 1 (1) | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | |
Totals | 81 (22) | 1 | 7411 (898) | 620 (1) | 55 | 144 (3) | 69 (1) | 56 | 4 | 129 | 6063 |
Table 4: Summary of C. elegans Computational Annotations
Summary Statistics Based on WormBase Release WS262
Genes Stats:
Genes with GO_term connections 13880 Non-IEA-only annotation 1170 IEA-only annotation 6290 Both IEA and non-IEA annotations 6420
GO_term Stats:
Distinct GO_terms connected to Genes 6023 Associated by non-IEA only 3567 Associated by IEA only 817 Associated by both IEA and non-IEA 1639
Type of Annotation | IEA |
---|---|
Interpro2GO | 21823 |
Other (e.g. Swiss-Prot keyword mapping) | 44965 |