Table 3 Biological process enrichment analysis of the BRI2 ES regional specific networks (cerebral cortex, hippocampus, and cerebellum) using Panther online resource. Enriched categories are identified as those with p-value < 0.05, and GO terms presented correspond to the two most specific for each category retrieved in the analysis. Nr. Number.
From: Identification and characterization of the BRI2 interactome in the brain
GO term | Nr. proteins | Fold enrichment (%) | p-value | Associated proteins |
|---|---|---|---|---|
BRI2 ES cerebral cortex specific network analysis | ||||
synaptic vesicle fusion to presynaptic active zone membrane (GO:0031629) | 9 | 55.78 | 1.28E-09 | SNAP25, SNAP23, SNAP47, STX3, STX2, SNAP29, STX11, STX1A, STX4 |
vesicle fusion with Golgi apparatus (GO:0048280) | 6 | 44.62 | 5.70E-05 | VTI1B, SEC. 22B, BET1, GOSR2, STX5, SEC. 22 A |
dendrite morphogenesis (GO:0048813) | 9 | 13.66 | 2.62E-04 | DLG4, ITGB1, FYN, DCX, ABI1, SHANK3, SHANK1, CAMK2A, MAP2 |
protein localization to membrane (GO:0072657) | 22 | 4.07 | 3.48E-04 | RTP2, TNF, VAMP4, VAMP3, VAMP2, DLG4, SNAP25, ITGB7, SNAP47, NUP54, DLG2, TMED2, STX3, SHANK3, DLG1, DLG3, STX1A, NSF, VAMP5, EGFR, RPS8, TNIK |
learning (GO:0007612) | 13 | 7.11 | 5.05E-04 | DLG4, SNAP25, SLC8A2, ITGB1, SHANK2, FYN, HTT, SHANK3, ATP1A2, SHANK1, APP, PARK2, GRIN1 |
regulation of protein localization to plasma membrane (GO:1903076) | 10 | 10.47 | 5.25E-04 | VTI1B, ITGB1, PIK3R1, STX8, STX3, GOPC, DLG1, STX7, EGFR, STX4 |
ERBB2 signaling pathway (GO:0038128) | 8 | 15.26 | 6.70E-04 | GRB2, CDC37, PTPN12, SRC, PIK3R1, ERBB4, ERBB2, EGFR |
long-term synaptic potentiation (GO:0060291) | 8 | 14.87 | 8.11E-04 | VAMP2, SNAP25, SLC8A2, SHANK2, SNAP47, STX3, SHANK3, STX4 |
retrograde vesicle-mediated transport, Golgi to ER (GO:0006890) | 10 | 9.18 | 1.74E-03 | TMED9, RINT1, SEC. 22B, KDELR1, TMED2, KIF18A, HTT, USE1, BNIP1, NSF |
retrograde transport, endosome to Golgi (GO:0042147) | 10 | 9.07 | 1.95E-03 | TRIM27, VAMP3, TMED9, DCTN1, VTI1B, STX10, STX16, GOSR2, STX5, STX6 |
post-Golgi vesicle-mediated transport (GO:0006892) | 10 | 8.55 | 3.32E-03 | VAMP4, VAMP3, VAMP2, VTI1B, SNAP23, GOSR2, GOPC, NSF, VAMP5, STX4 |
receptor localization to synapse (GO:0097120) | 5 | 33.80 | 4.14E-03 | DLG4, DLG2, ANKS1B, DLG1, DLG3 |
regulation of ion transport (GO:0043269) | 25 | 3.17 | 4.50E-03 | TRIM27, CREB3, VAMP3, KCNA3, PRKACA, VAMP2, PLN, DLG4, GPM6B, YWHAE, KCNA1, PLCG1, HTT, SHANK3, ATP1A2, PRKCD, ATP2B2, ABL1, HOMER1, SHANK1, DLG1, CALCA, KCNA10, CAMK2A, PARK2 |
vesicle-mediated transport to the plasma membrane (GO:0098876) | 9 | 9.70 | 4.52E-03 | VAMP4, VAMP3, VAMP2, SNAP25, SNAP47, STX3, GOPC, NSF, VAMP5 |
positive regulation of excitatory postsynaptic potential (GO:2000463) | 6 | 20.28 | 5.65E-03 | RIMS1, DLG4, SHANK3, SHANK1, STX1A, GRIN1 |
GDP metabolic process (GO:0046710) | 5 | 28.60 | 9.33E-03 | MAGI3, DLG4, DLG2, DLG1, DLG3 |
neuromuscular process (GO:0050905) | 10 | 7.36 | 1.25E-02 | DLG4, KCNA1, PTPRQ, SHANK3, ATP2B2, ABL1, SHANK1, APP, PARK2, GRIN1 |
SNARE complex assembly (GO:0035493) | 4 | 49.58 | 1.33E-02 | VAMP4, VAMP3, VAMP1, STX4 |
protein localization to synapse (GO:0035418) | 6 | 17.16 | 1.47E-02 | DLG4, SNAP25, SNAP47, STX3, SHANK1, PCLO |
regulation of intracellular transport (GO:0032386) | 22 | 3.24 | 1.54E-02 | CREB3, TNF, VAMP3, RIMS1, VAMP2, PLN, NAPB, SRC, EMD, YWHAE, RINT1, NUP54, PIK3R1, RNASE2, ERBB4, ERBB2, PRKCD, HMOX1, MDM2, STX1A, PARK2, EGFR |
peptidyl-tyrosine phosphorylation (GO:0018108) | 13 | 5.14 | 1.83E-02 | TRIM27, INSR, CDC37, SRC, ABI3, FYN, PIBF1, ERBB4, ERBB2, ABI1, PRKCD, ABL1, EGFR |
COPII vesicle coating (GO:0048208) | 8 | 9.75 | 1.86E-02 | GOLGA2, GRIA1, SEC. 22B, BET1, TMED2, GOSR2, STX5, NSF |
activation of protein kinase activity (GO:0032147) | 16 | 4.09 | 2.38E-02 | TNF, AGAP2, INSR, ITGB3, PRKACA, SRC, PIBF1, CRK, PLCG1, PRKCD, ABL1, CD81, DLG1, CALCA, EGFR, TNIK |
synaptic vesicle docking (GO:0016081) | 4 | 37.18 | 4.12E-02 | SNAP25, STX3, BLOC1S6, STX1A |
BRI2 ES hippocampus specific network analysis | ||||
synaptic vesicle fusion to presynaptic active zone membrane (GO:0031629) | 7 | 77.92 | 6.23E-08 | STX19, STX1B, STX3, STX2, SNAP29, STX1A, STX4 |
cytoskeleton organization (GO:0007010) | 28 | 3.97 | 3.85E-06 | CRMP1, PFN1, DPYSL3, UBE2B, MYO18A, KLHL20, DPYSL2, ACTR2, SRC, FLNA, ADD2, DBN1, SDCBP, LIMA1, ZAK, ANK2, KIF18A, HTT, PIP5K1A, ANLN, SPRY2, SEPT1, SYNE4, CCDC155, AXIN1, MYH9, VIM, CDK5RAP2 |
vesicle docking (GO:0048278) | 9 | 20.73 | 6.79E-06 | STX19, STX1B, STX3, STX2, STX16, STX5, STX1A, STX4, STX6 |
intracellular protein transport (GO:0006886) | 23 | 4.15 | 7.66E-05 | AP3M1, CDC37, NAPB, STX19, EHD3, YWHAE, SDCBP, STX1B, VCP, STX3, MICALL1, ANK2, STX2, PIP5K1A, MYO1C, MCM3AP, STX16, BID, STX5, ARL6IP1, STX1A, STX4, STX6 |
cell projection organization (GO:0030030) | 25 | 3.23 | 1.95E-03 | CRMP1, MAPK8IP2, UBE2B, IQCB1, RTN4, DPYSL2, HMGB1, ACTR2, SRC, FLNA, EHD3, TMEM17, YWHAE, SDCBP, RPS6KA5, LIMA1, INTU, STX3, MICALL1, IQGAP1, PIP5K1A, SNAP29, SLC12A5, MYH9, CDK5RAP2 |
Golgi vesicle transport (GO:0048193) | 14 | 5.62 | 2.22E-03 | MYO18A, KLHL20, EHD3, RBSN, BET1, TFG, VCP, ANK2, KIF18A, HTT, STX5, STX4, ANKFY1, STX6 |
spindle localization (GO:0051653) | 6 | 20.04 | 5.83E-03 | ACTR2, HTT, SPRYZ, CCDC155, MYH9, CDK5RAP2 |
cell differentiation (GO:0030154) | 50 | 1.95 | 1.00E-02 | CRMP1, DPYSL3, MAPK8IP2, UBE2B, MAPK6, RTN4, ATF2, DPYSL2, HMGB1, ACTR2, SRC, FLNA, AGR2, DBN1, IL33, YWHAE, PSMD11, RPS6KA5, BASP1, STX1B, INTU, STX3, CDK5RAP3, ZAK, MICALL1, ANK2, IQGAP1, STX2, RNF8, FXR1, PIP5K1A, ANLN, SMPD3, SPRY2, HNRNPH3, RIPK3, SYNE4, SLC12A5, HSPE1, CCDC155, AXIN1, GNB2L1, MYH9, ANXA7, VIM, TRIP13, CDK5RAP2, CPNE9, FAS, RGS2 |
protein complex assembly (GO:0006461) | 23 | 3.04 | 1.75E-02 | DPYSL3, MAPK8IP2, TK1, RTN4, SRC, ADD2, EHD3, PSMD11, BET1, TFG, VCP, CADPS, NDUFV2, STX2, AMFR, ANLN, SNAP29, RIPK3, BID, STX5, AXIN1, STX4, FAZ |
regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043281) | 10 | 6.61 | 2.92E-02 | HMGB1, SRC, YWHAE, VCP, SERPINB9, BID, ARL6IP1, HSPE1, GNB2L1, FAZ |
actin filament-based process (GO:0030029) | 15 | 4.14 | 3.50E-02 | PFN1, DPYSL3, MYO18A, ACTR2, SRC, FLNA, ADD2, DBN1, SDCBP, LIMA1, ANK2, PIP5K1A, CCDC155, MYH9, VIM |
supramolecular fiber organization (GO:0097435) | 13 | 4.72 | 3.97E-02 | DPYSL3, ACTR2, SRC, FLNA, ADD2, DBN1, LIMA1, KIF18A, RIPK3, CCDC155, AXIN1, VIM, HSP90AB1 |
positive regulation of intracellular signal transduction (GO:1902533) | 21 | 3.08 | 4.21E-02 | MAPK8IP2, RGL2, PELI2, HMGB1, SRC, FLNA, SDCBP, TFG, CDK5RAP3, ZAK, IQGAP1, HTT, PLA2G2A, SPRY2, RIPK3, BID, CCL18, AXIN1, GNB2L1, EEF1D, FAS |
cytosolic transport (GO:0016482) | 8 | 8.62 | 4.29E-02 | KLHL20, ACTR2, EHD3, RBSN, STX16, STX5, ANKFY1, STX6 |
BRI2 ES cerebellum-specific network analysis | ||||
synaptic vesicle recycling (GO:0036465) | 4 | 60.13 | 5.56E-03 | SH3GL2, SYT2, SYT7, SH3GL1 |
endocytosis (GO:0006897) | 9 | 7.44 | 2.22E-02 | SH3GL3, SH3GL2, WIPF1, DPYSL2, SYT2, SYT7, CSNK1E, SH3GL1, CACNG2 |
developmental process (GO:0032502) | 28 | 2.42 | 2.29E-03 | SH3GL3, COL10A1, SH3GL2, GFI1B, DPYSL4, DPYSL2, PRKD2, RHEB, SYT2, SIAH1, ITM2B, KIF18A, PTPRO, HTT, SRPK2, CSNK1E, SH3GL1, SPRED1, TFF1, LITAF, SYNE4, UCHL1, CCDC155, TRIP13, ARIH2, SPRY3, SPRED2, NCAM1 |
