Summary ?
GeneID9276
SymbolCOPB2
Synonymsbeta'-COP
Descriptioncoatomer protein complex subunit beta 2 (beta prime)
ReferenceMIM:606990|HGNC:HGNC:2232|Ensembl:ENSG00000184432|HPRD:06103|Vega:OTTHUMG00000159959
Gene typeprotein-coding
Map location3q23
Pascal p-value0.303
Sherlock p-value0.004
Fetal beta-0.157
DMG1 (# studies)

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1
NetworkShortest path distance of core genes in the Human protein-protein interaction networkContribution to shortest path in PPI network: 1.6555 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg096506673139108740COPB24.04E-8-0.011.14E-5DMG:Jaffe_2016


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MRPL450.900.92
CCT40.900.90
DYM0.890.90
MRPL30.880.89
CCT50.880.88
RFWD20.880.90
VTA10.880.89
ARF40.880.91
ZNF4100.880.90
PWP10.880.90
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MT-CO2-0.71-0.78
AF347015.8-0.71-0.80
AF347015.33-0.70-0.78
AF347015.27-0.70-0.78
MT-CYB-0.69-0.78
AF347015.15-0.69-0.78
AF347015.26-0.69-0.80
AF347015.31-0.69-0.76
AF347015.2-0.68-0.79
AIFM3-0.66-0.73

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0005515protein bindingIPI17220478 |17353931 
GO:0005198structural molecule activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0016044membrane organizationEXP11031247 
GO:0006886intracellular protein transportIEA-
GO:0006890retrograde vesicle-mediated transport, Golgi to EREXP11031247 
GO:0006890retrograde vesicle-mediated transport, Golgi to ERTAS11030615 
GO:0006891intra-Golgi vesicle-mediated transportIDA8335000 
GO:0016192vesicle-mediated transportIEA-
GO:0048205COPI coating of Golgi vesicleEXP16956762 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0000139Golgi membraneIEA-
GO:0005794Golgi apparatusIEA-
GO:0005829cytosolEXP8533093 |8599108 
GO:0005737cytoplasmIEA-
GO:0030117membrane coatIEA-
GO:0016020membraneIEA-
GO:0031410cytoplasmic vesicleIEA-
GO:0030126COPI vesicle coatIDA8335000 

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
COPAFLJ26320 | HEP-COPcoatomer protein complex, subunit alphaTwo-hybridBioGRID10921873 
COPAFLJ26320 | HEP-COPcoatomer protein complex, subunit alpha-HPRD8537409 |8940050 
COPB1COPB | DKFZp761K102 | FLJ10341coatomer protein complex, subunit beta 1Affinity Capture-Western
Two-hybrid
BioGRID8940050 |10921873 
COPEFLJ13241 | epsilon-COPcoatomer protein complex, subunit epsilonTwo-hybridBioGRID10921873 
COPGCOPG1 | FLJ21068coatomer protein complex, subunit gammaTwo-hybridBioGRID10921873 
COPZ2MGC23008coatomer protein complex, subunit zeta 2-HPRD8940050 
ILKDKFZp686F1765 | P59integrin-linked kinaseAffinity Capture-MSBioGRID17353931 
NFKB1DKFZp686C01211 | EBP-1 | KBF1 | MGC54151 | NF-kappa-B | NFKB-p105 | NFKB-p50 | p105nuclear factor of kappa light polypeptide gene enhancer in B-cells 1Affinity Capture-MSBioGRID14743216 
PRKCEMGC125656 | MGC125657 | PKCE | nPKC-epsilonprotein kinase C, epsilonAffinity Capture-MS
Affinity Capture-Western
BioGRID11897493 
PRKCEMGC125656 | MGC125657 | PKCE | nPKC-epsilonprotein kinase C, epsilon-HPRD9360998 
RGS2G0S8regulator of G-protein signaling 2, 24kDa-HPRD,BioGRID10982407 
RGS4DKFZp761F1924 | MGC2124 | MGC60244 | RGP4 | SCZD9regulator of G-protein signaling 4-HPRD,BioGRID10982407 
SACM1LDKFZp686A0231 | KIAA0851 | SAC1SAC1 suppressor of actin mutations 1-like (yeast)hSac1 interacts with beta-COP.BIND14527956 
TH1LHSPC130 | NELF-C | NELF-D | TH1TH1-like (Drosophila)Affinity Capture-MSBioGRID17353931 
TSC22D1DKFZp686O19206 | MGC17597 | RP11-269C23.2 | TGFB1I4 | TSC22TSC22 domain family, member 1Affinity Capture-MSBioGRID17353931 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
REACTOME MEMBRANE TRAFFICKING 12974All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP 1382904All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 3 UP 329196All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION DN 234147All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND SERUM DEPRIVATION DN 8454All SZGR 2.0 genes in this pathway
OUELLET OVARIAN CANCER INVASIVE VS LMP UP 11785All SZGR 2.0 genes in this pathway
HEIDENBLAD AMPLICON 8Q24 DN 4628All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS UP 414287All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN 584395All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS 957597All SZGR 2.0 genes in this pathway
CAFFAREL RESPONSE TO THC 24HR 5 DN 5935All SZGR 2.0 genes in this pathway
PENG LEUCINE DEPRIVATION DN 187122All SZGR 2.0 genes in this pathway
PENG RAPAMYCIN RESPONSE DN 245154All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA DN 408274All SZGR 2.0 genes in this pathway
RHODES CANCER META SIGNATURE 6447All SZGR 2.0 genes in this pathway
KAYO CALORIE RESTRICTION MUSCLE DN 8759All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 5 482296All SZGR 2.0 genes in this pathway
PELLICCIOTTA HDAC IN ANTIGEN PRESENTATION UP 6440All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE BY GAMMA AND UV RADIATION 8865All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE DN 195135All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 2D UP 6946All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP 973570All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP 863514All SZGR 2.0 genes in this pathway
YAGI AML WITH INV 16 TRANSLOCATION 422277All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN 19721213All SZGR 2.0 genes in this pathway