Difference between revisions of "2018"
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Line 27: | Line 27: | ||
|- | |- | ||
!CACAO | !CACAO | ||
− | | | + | | 18 || 1 || 3 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
!BHF-UCL | !BHF-UCL | ||
− | | 11 || 0 || 0 || 2 || 0 || 4 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 | + | | 11 || 0 || 0 || 2 || 0 || 4 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
!MGI | !MGI | ||
− | | 4 || 0 || 6 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 | + | | 4 || 0 || 6 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
!HGNC | !HGNC | ||
− | | 0 || 0 || 0 || 4 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 | + | | 0 || 0 || 0 || 4 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
!GO_Central | !GO_Central | ||
− | | 2 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || | + | | 2 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 12247 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
!ParkinsonsUK-UCL | !ParkinsonsUK-UCL | ||
− | | | + | | 10 (4) || 6 (3) || 11 || 2 (1) || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
!CAFA | !CAFA | ||
− | | 2 || 0 || 2 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 | + | | 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 | !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 |
|} | |} | ||
Line 65: | Line 68: | ||
|- | |- | ||
!IntAct | !IntAct | ||
− | | 0 || 0 || 0 || 0 || 0 || 2238 (60) | + | | 0 || 0 || 0 || 0 || 0 || 2238 (60) || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
!UniProt | !UniProt | ||
Line 74: | Line 77: | ||
|- | |- | ||
!GO_Central | !GO_Central | ||
− | | 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || | + | | 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 9803 || 0 || 1 |
|- | |- | ||
!HGNC | !HGNC | ||
Line 84: | Line 87: | ||
!CAFA | !CAFA | ||
| 1 || 0 || 0 || 0 || 0 || 1 || 0 || 0 || 0 || 0 || 0 || 0 || 0 | | 1 || 0 || 0 || 0 || 0 || 1 || 0 || 0 || 0 || 0 || 0 || 0 || 0 | ||
− | |||
− | |||
− | |||
|- | |- | ||
!Totals | !Totals | ||
− | | | + | | 291 (24) || 58 || 2091 (223) || 876 (23) || 57 (1) || 4107 (70) || 144 (1) || 54 || 3 || 203 || 9803 || 2 || 4 |
|} | |} | ||
Line 105: | Line 105: | ||
|- | |- | ||
!GO_Central | !GO_Central | ||
− | | 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || | + | | 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 10565 || 0 || 0 |
|- | |- | ||
!UniProt | !UniProt | ||
Line 111: | Line 111: | ||
|- | |- | ||
!MGI | !MGI | ||
− | | 0 || 0 || 16 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 | + | | 0 || 0 || 16 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
!HGNC | !HGNC | ||
− | | 0 || 0 || 0 || 8 || 0 || 0 || 0 || 0 || 0 || 0 || 0 | + | | 0 || 0 || 0 || 8 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
! BHF-UCL | ! BHF-UCL | ||
− | | 0 || 0 || 7 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 | + | | 0 || 0 || 7 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
|- | |- | ||
!CACAO | !CACAO | ||
− | | 0 || 0 || 3 || 0 || 0 || 0 || 0 | + | | 0 || 0 || 3 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 |
− | |||
− | |||
− | |||
|- | |- | ||
!SynGO | !SynGO | ||
− | | 29 || 0 ||89 (8) || 1 (1) || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 2 | + | | 29 || 0 ||89 (8) || 1 (1) || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 0 || 2 |
|- | |- | ||
!Totals | !Totals | ||
− | | | + | | 116 || 1 || 6479 (460) || 607 (1) || 47 || 141 (3) || 65 || 54 || 4 || 128 || 10565 || 545 (452) || 2 |
|} | |} | ||
Line 135: | Line 132: | ||
'''Table 4: Summary of ''C. elegans'' Computational Annotations''' | '''Table 4: Summary of ''C. elegans'' Computational Annotations''' | ||
− | Summary Statistics Based on WormBase Release | + | Summary Statistics Based on WormBase Release WS268 |
Genes Stats: | Genes Stats: | ||
− | Genes with GO_term connections | + | Genes with GO_term connections 13883 |
− | Non-IEA-only annotation | + | Non-IEA-only annotation 1135 |
− | IEA-only annotation | + | IEA-only annotation 6293 |
− | Both IEA and non-IEA annotations | + | Both IEA and non-IEA annotations 6455 |
GO_term Stats: | GO_term Stats: | ||
− | Distinct GO_terms connected to Genes | + | Distinct GO_terms connected to Genes 6094 |
− | Associated by non-IEA only | + | Associated by non-IEA only 3482 |
− | Associated by IEA only | + | Associated by IEA only 882 |
− | Associated by both IEA and non-IEA | + | Associated by both IEA and non-IEA 1730 |
{| class="wikitable" style="text-align:center" | {| class="wikitable" style="text-align:center" | ||
Line 155: | Line 152: | ||
|- | |- | ||
| Interpro2GO | | Interpro2GO | ||
− | | | + | | 21465 |
|- | |- | ||
| Other (e.g. Swiss-Prot keyword mapping) | | Other (e.g. Swiss-Prot keyword mapping) | ||
− | | | + | | 44502 |
|- | |- | ||
|} | |} |
Latest revision as of 13:40, 17 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 | 0 | 0 |
HGNC | 0 | 0 | 0 | 8 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
BHF-UCL | 0 | 0 | 7 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
CACAO | 0 | 0 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
SynGO | 29 | 0 | 89 (8) | 1 (1) | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 |
Totals | 116 | 1 | 6479 (460) | 607 (1) | 47 | 141 (3) | 65 | 54 | 4 | 128 | 10565 | 545 (452) | 2 |
Table 4: Summary of C. elegans Computational Annotations
Summary Statistics Based on WormBase Release WS268
Genes Stats:
Genes with GO_term connections 13883 Non-IEA-only annotation 1135 IEA-only annotation 6293 Both IEA and non-IEA annotations 6455
GO_term Stats:
Distinct GO_terms connected to Genes 6094 Associated by non-IEA only 3482 Associated by IEA only 882 Associated by both IEA and non-IEA 1730
Type of Annotation | IEA |
---|---|
Interpro2GO | 21465 |
Other (e.g. Swiss-Prot keyword mapping) | 44502 |