GOLink: Finding Cooccurring Terms across Gene Ontology Namespaces
Table 1
(a) Top 10 terms in the GOLink all_list generated using the query term “regulation of gene expression” (GO:0010468) and applying the evidence code filter “!IEA” and database filter “UniProtKB.” (b) Top 10 terms in the GOLink query_list generated using the query term “regulation of gene expression” (GO:0010468) and applying the evidence code filter “!IEA” and database filter “UniProtKB.” (c) Top 10 terms in the GOLink parchild_list generated using the query term “regulation of gene expression” (GO:0010468) and applying the evidence code filter “!IEA” and database filter “UniProtKB.”
(a)
Namespace
GO_ID
GO_Name
Score (PR)
Score (%)
cellular_component
GO:0005634
Nucleus
5.19
22.32
biological_process
GO:0006355
Regulation of transcription, DNA-dependent
16.53
20.96
biological_process
GO:0045893
Positive regulation of transcription, DNA-dependent
16.53
20.7
molecular_function
GO:0003700
Sequence-specific DNA binding transcription factor activity
14.98
20.31
biological_process
GO:0045944
Positive regulation of transcription from RNA polymerase II promoter
16.53
18.12
biological_process
GO:0045892
Negative regulation of transcription, DNA-dependent
16.53
17.17
cellular_component
GO:0005737
Cytoplasm
3.29
12.55
molecular_function
GO:0005515
Protein binding
3.14
12.49
biological_process
GO:0000122
Negative regulation of transcription from RNA polymerase II promoter
16.53
12.06
molecular_function
GO:0003677
DNA binding
10.00
10.11
(b)
Namespace
GO_ID
GO_Name
Score (PR)
Score (%)
biological_process
GO:0010468
Regulation of gene expression
1556.26
100
biological_process
GO:0060059
Embryonic retina morphogenesis in camera-type eye
1141.26
19.3
biological_process
GO:2000744
Positive regulation of anterior head development
1556.26
18.87
biological_process
GO:0072049
Comma-shaped body morphogenesis
1556.26
18.87
biological_process
GO:0072050
S-shaped body morphogenesis
1556.26
18.87
biological_process
GO:0021937
Cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation
1556.26
18.87
biological_process
GO:0072077
Renal vesicle morphogenesis
1556.26
18.87
biological_process
GO:0021527
Spinal cord association neuron differentiation
1414.79
18.52
biological_process
GO:0061205
Paramesonephric duct development
1296.89
18.18
biological_process
GO:0001705
Ectoderm formation
1296.89
18.18
(c)
Namespace
GO_ID
GO_Name
Score (PR)
Score (%)
biological_process
GO:0006355
Regulation of transcription, DNA-dependent
34.60
28.54
molecular_function
GO:0003700
Sequence-specific DNA binding transcription factor activity
27.11
22.2
biological_process
GO:0045893
Positive regulation of transcription, DNA-dependent
8.57
5.78
biological_process
GO:0045892
Negative regulation of transcription, DNA-dependent
