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Table 2 Identified Gene Ontology (GO) enrichment pathways of normalized phospho-enriched protein hits across phospho-proteomic analyses. Identified pathways (nodes) are sorted by analysis (WT vs Pyk2−/− and PS190/+ vs PS190/+;Pyk2−/−) and by percent associated genes

From: Alzheimer risk gene product Pyk2 suppresses tau phosphorylation and phenotypic effects of tauopathy

Fraction

Analysis

% Associated Genes

Associated Genes Found

Number of Genes

Pathway Term

GO ID

Term P-Value

Term P-Value Corrected with Bonferroni Step Down

Normalized Phospho-Enriched Protein

WT vs Pyk2−/−

11.43

BRSK1, GSK3A, GSK3B, MARK2

4

tau-protein kinase activity

GO:0050321

4.49E-08

5.39E-07

2.33

BRSK1, GSK3B, MARK2, STK11

4

regulation of axonogenesis

GO:0050770

2.76E-05

2.76E-04

1.48

AP2A1, BRSK1, GSK3A, GSK3B, MAGI2, MARK2, STK11

7

regulation of neuron projection development

GO:0010975

3.06E-07

3.37E-06

1.31

BRSK1, GSK3A, GSK3B, MARK2, STK11

5

protein serine kinase activity

GO:0106310

3.71E-05

3.34E-04

1.31

BRSK1, GSK3A, GSK3B, MARK2, STK11

5

protein threonine kinase activity

GO:0106311

3.71E-05

3.34E-04

1.19

GSK3A, GSK3B, MARK2, PLCL2

4

peptidyl-serine phosphorylation

GO:0018105

3.62E-04

0.002893702

0.93

AP2A1, BRSK1, CPNE6, GPM6B, GSK3A, GSK3B, MAGI2, MAP 4, MARK2, STK11

10

neuron projection development

GO:0031175

2.92E-08

3.79E-07

0.71

BRSK1, CPNE6, GSK3B, MARK2, STK11

5

neuron projection morphogenesis

GO:0048812

6.72E-04

0.004700896

0.47

GSK3A, MAGI2, MARK2, MPP3, STK11

5

positive regulation of phosphate metabolic process

GO:0045937

0.004069528

0.012208583

0.41

BRSK1, GSK3A, GSK3B, MARK2, MPP3, PLCL2, STK11

7

protein phosphorylation

GO:0006468

0.001289881

0.007739284

0.41

GSK3A, GSK3B, MAGI2, MARK2, MPP3, PLCL2, STK11

7

regulation of protein modification process

GO:0031399

0.001294324

0.006471619

0.39

GSK3A, MARK2, MPP3, PLCL2, STK11

5

regulation of protein phosphorylation

GO:0001932

0.008870538

0.017741077

0.39

GSK3A, GSK3B, MAGI2, MARK2, MPP3, STK11

6

positive regulation of cellular protein metabolic process

GO:0032270

0.00389758

0.015590322

0.36

GSK3A, GSK3B, MARK2, MPP3, PLCL2

5

peptidyl-amino acid modification

GO:0018193

0.011955289

0.011955289

PS190/+ vs PS190/+;Pyk2−/−

1.54

GNAO1, PTK2B, SLC30A1, TRPV2

4

regulation of calcium ion transport

GO:0051924

4.89E-04

0.003424011

0.89

GRIA1, PTK2B, SCN2A, SLC30A1, TRPV2

5

cation channel activity

GO:0005261

0.001096794

0.006580766

0.85

GRIA1, PTK2B, SLC30A1, TRPV2

4

cellular calcium ion homeostasis

GO:0006874

0.004364709

0.021823543