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Table 3 Ciliary GO terms used in experimental annotations of mouse genes

From: Sensing the cilium, digital capture of ciliary data for comparative genomics investigations

# GO aspect GO ID GO term name Used in 2013 Used in 2016 Note
1 BP GO:0001539 Ciliary or bacterial-type flagellar motility Y N Term was too general for annotation of mouse genes; annotations were moved to a more specific term
2 BP GO:0035083 Cilium axoneme assembly Y N Merged into GO:0035082 “axoneme assembly”
3 BP GO:0042384 Cilium morphogenesis Y N Originally named “cilium assembly” before merge of GO:0060271 and GO:0042384 (IDs switched)
4 BP GO:0035058 Non-motile primary cilium assembly Y N Merged into GO:1905515 “non-motile cilium assembly”
5 CC GO:0035085 Cilium axoneme Y N Merged into GO:0005930 “axoneme”
6 CC GO:0031512 Motile primary cilium Y N Merged into GO:0031514 “motile cilium”
7 CC GO:0031513 Non-motile primary cilium Y N Merged into GO:0097730 “non-motile cilium”
8 CC GO:0072372 Primary cilium Y N Merged into GO:0005929 “cilium”
9 BP GO:0070286 Axonemal dynein complex assembly Y Y Modified by GOC/SYSCILIA project
10 BP GO:0060404 Axonemal microtubule depolymerization Y Y Modified by GOC/SYSCILIA project
11 BP GO:0035082 Axoneme assembly Y Y Modified by GOC/SYSCILIA project
12 BP GO:0060830 Ciliary receptor clustering involved in smoothened signaling pathway Y Y Modified by GOC/SYSCILIA project
13 BP GO:0060271 Cilium assembly Y Y Modified by GOC/SYSCILIA project; ID changed due to merge with GO:0042384 to remove “cilium morphogenesis” as a GO term
14 BP GO:0003341 Cilium movement Y Y  
15 BP GO:0044782 Cilium organization Y Y Added by GOC/SYSCILIA project
16 BP GO:0060285 Cilium-dependent cell motility (a) Y Y Modified by GOC/SYSCILIA project
17 BP GO:0003351 Epithelial cilium movement Y Y  
18 BP GO:0060287 Epithelial cilium movement involved in determination of left/right asymmetry Y Y  
19 BP GO:0030317 Flagellated sperm motility (a) Y Y Modified by GOC/SYSCILIA project
20 BP GO:0036159 Inner dynein arm assembly Y Y  
21 BP GO:0035721 Intraciliary retrograde transport (a) Y Y Modified by GOC/SYSCILIA project
22 BP GO:0042073 Intraciliary transport (a) Y Y Modified by GOC/SYSCILIA project
23 BP GO:0044458 Motile cilium assembly Y Y Added by GOC/SYSCILIA project
24 BP GO:0036158 Outer dynein arm assembly Y Y  
25 BP GO:0045724 Positive regulation of cilium assembly Y Y Modified by GOC/SYSCILIA project
26 BP GO:1901248 Positive regulation of lung ciliated cell differentiation Y Y  
27 BP GO:0061512 Protein localization to cilium Y Y Added by other
28 BP GO:1902017 Regulation of cilium assembly Y Y Added by GOC/SYSCILIA project
29 BP GO:0003356 Regulation of cilium beat frequency Y Y  
30 BP GO:0060296 Regulation of cilium beat frequency involved in ciliary motility Y Y Modified by GOC/SYSCILIA project
31 BP GO:0007288 Sperm axoneme assembly Y Y Modified by GOC/SYSCILIA project
32 CC GO:0005858 Axonemal dynein complex Y Y Modified by GOC/SYSCILIA project
33 CC GO:0005930 Axoneme Y Y Modified by GOC/SYSCILIA project
34 CC GO:0034464 BBSome Y Y Modified by GOC/SYSCILIA project
35 CC GO:0036064 Ciliary basal body (a) Y Y Modified by GOC/SYSCILIA project
36 CC GO:0060170 Ciliary membrane (a) Y Y Modified by GOC/SYSCILIA project
37 CC GO:0035253 Ciliary rootlet Y Y Modified by GOC/SYSCILIA project
38 CC GO:0035869 Ciliary transition zone Y Y Modified by GOC/SYSCILIA project
39 CC GO:0005929 Cilium Y Y Modified by GOC/SYSCILIA project
40 CC GO:0030991 Intraciliary transport particle A (a) Y Y Modified by GOC/SYSCILIA project
41 CC GO:0030992 Intraciliary transport particle B (a) Y Y Modified by GOC/SYSCILIA project
42 CC GO:0036038 MKS complex (a) Y Y Modified by GOC/SYSCILIA project
43 CC GO:0031514 Motile cilium Y Y Modified by GOC/SYSCILIA project
44 CC GO:0036157 Outer dynein arm Y Y  
45 CC GO:0032391 Photoreceptor connecting cilium Y Y Modified by GOC/SYSCILIA project
46 CC GO:0001750 Photoreceptor outer segment Y Y Modified by GOC/SYSCILIA project
47 CC GO:0036126 Sperm flagellum Y Y Modified by GOC/SYSCILIA project
48 CC GO:0097225 Sperm midpiece Y Y  
49 BP GO:1904158 Axonemal central apparatus assembly N Y Added by GOC/SYSCILIA project
50 BP GO:0032053 Ciliary basal body organization N Y Modified by GOC/SYSCILIA project
51 BP GO:0060294 Cilium movement involved in cell motility N Y  
52 BP GO:0035720 Intraciliary anterograde transport N Y Modified by GOC/SYSCILIA project
53 BP GO:0035735 Intraciliary transport involved in cilium assembly N Y Modified by GOC/SYSCILIA project
54 BP GO:1903251 Multiciliated epithelial cell differentiation N Y Added by other
55 BP GO:1902018 Negative regulation of cilium assembly N Y Added by GOC/SYSCILIA project
56 BP GO:1902856 Negative regulation of non-motile cilium assembly N Y Added by GOC/SYSCILIA project
57 BP GO:1903568 Negative regulation of protein localization to ciliary membrane N Y Added by GOC/SYSCILIA project
58 BP GO:1903565 Negative regulation of protein localization to cilium N Y Added by GOC/SYSCILIA project
59 BP GO:1905515 Non-motile cilium assembly N Y Added by GOC/SYSCILIA project
60 BP GO:0003353 Positive regulation of cilium movement N Y  
61 BP GO:1902857 Positive regulation of non-motile cilium assembly N Y Added by GOC/SYSCILIA project
62 BP GO:1903566 Positive regulation of protein localization to cilium N Y Added by GOC/SYSCILIA project
63 BP GO:1903441 Protein localization to ciliary membrane N Y Added by GOC/SYSCILIA project
64 BP GO:1904491 Protein localization to ciliary transition zone N Y Added by other
65 BP GO:0097499 Protein localization to non-motile cilium N Y Added by GOC/SYSCILIA project
66 BP GO:1903621 Protein localization to photoreceptor connecting cilium N Y Added by other
67 BP GO:1903546 Protein localization to photoreceptor outer segment N Y Added by other
68 BP GO:1903445 Protein transport from ciliary membrane to plasma membrane N Y Added by GOC/SYSCILIA project
69 BP GO:0097500 Receptor localization to non-motile cilium N Y Added by GOC/SYSCILIA project
70 BP GO:1902855 Regulation of non-motile cilium assembly N Y Added by GOC/SYSCILIA project
71 CC GO:0097729 9 + 2 motile cilium N Y Added by GOC/SYSCILIA project
72 CC GO:0097541 Axonemal basal plate N Y Added by GOC/SYSCILIA project
73 CC GO:1990716 Axonemal central apparatus N Y Added by GOC/SYSCILIA project
74 CC GO:1990718 Axonemal central pair projection N Y Added by GOC/SYSCILIA project
75 CC GO:0005879 Axonemal microtubule N Y Modified by GOC/SYSCILIA project
76 CC GO:0097546 Ciliary base N Y Added by GOC/SYSCILIA project
77 CC GO:0097543 Ciliary inversin compartment N Y Added by GOC/SYSCILIA project
78 CC GO:0097542 Ciliary tip N Y Added by GOC/SYSCILIA project
79 CC GO:0097539 Ciliary transition fiber N Y Added by GOC/SYSCILIA project
80 CC GO:0036156 Inner dynein arm N Y  
81 CC GO:0030990 Intraciliary transport particle N Y Modified by GOC/SYSCILIA project
82 CC GO:1902636 Kinociliary basal body N Y Added by GOC/SYSCILIA project
83 CC GO:0060091 Kinocilium N Y Modified by GOC/SYSCILIA project
84 CC GO:0097730 Non-motile cilium N Y Added by GOC/SYSCILIA project
85 CC GO:0001520 Outer dense fiber N Y Modified by GOC/SYSCILIA project
86 CC GO:1990075 Periciliary membrane compartment N Y Added by GOC/SYSCILIA project
87 CC GO:0097227 Sperm annulus N Y  
88 CC GO:0035686 Sperm fibrous sheath N Y Modified by GOC/SYSCILIA project
89 CC GO:0097228 Sperm principal piece N Y  
  1. This table shows the ciliary GO terms used for annotation of mouse genes by experimental evidence codes in July 2013 and the additional GO terms used in December 2016. Of the 48 ciliary GO terms used in 2013, eight were no longer used in 2016. Seven of these were considered to be redundant with other existing terms and were thus merged into other ciliary GO terms; the eighth was too general for use in annotations of mouse genes. As of December 2016, an additional 41 ciliary terms, many of them newly added, have been used in experimental annotations of mouse genes for a total of 81 ciliary terms. (a) Term name changed since July 2013