Summary ?
GeneID10092
SymbolARPC5
SynonymsARC16|dJ127C7.3|p16-Arc
Descriptionactin related protein 2/3 complex subunit 5
ReferenceMIM:604227|HGNC:HGNC:708|HPRD:11969|
Gene typeprotein-coding
Map location1q25.3
Sherlock p-value0.647
Fetal beta0.925
DMG2 (# studies)
SupportSTRUCTURAL PLASTICITY

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
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. 4
DMG:Nishioka_2013Genome-wide DNA methylation analysisThe authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls. 4
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 4
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 1 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg260189651183604789ARPC5;RGL12.628E-4-0.2720.038DMG:Wockner_2014
cg271556531183604774ARPC5-0.0330.27DMG:Nishioka_2013
cg127373631183604674ARPC52.24E-10-0.0295.98E-7DMG:Jaffe_2016
cg271556531183604774ARPC53.34E-8-0.0129.98E-6DMG: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
SUFU0.970.95
C14orf1180.960.95
RNF380.960.96
RFX70.960.96
ZNF3980.950.96
ZNF3170.950.97
DCAF50.950.97
DCP1A0.950.95
RRP1B0.950.95
PRRC10.950.95
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
C5orf53-0.71-0.77
AF347015.31-0.71-0.88
MT-CO2-0.70-0.89
AIFM3-0.70-0.77
FXYD1-0.70-0.88
S100B-0.69-0.83
AF347015.33-0.69-0.85
AF347015.27-0.69-0.86
HLA-F-0.69-0.75
IFI27-0.68-0.84

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003779actin bindingIEA-
GO:0005515protein bindingIPI17353931 
GO:0005200structural constituent of cytoskeletonTAS9230079 
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006928cell motionTAS9230079 
GO:0030036actin cytoskeleton organizationTAS9359840 
GO:0030833regulation of actin filament polymerizationIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0042995cell projectionIEAaxon (GO term level: 4)-
GO:0005856cytoskeletonIEA-
GO:0005737cytoplasmTAS9359840 
GO:0005885Arp2/3 protein complexTAS9230079 

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG FC GAMMA R MEDIATED PHAGOCYTOSIS 9771All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON 216144All SZGR 2.0 genes in this pathway
KEGG PATHOGENIC ESCHERICHIA COLI INFECTION 5936All SZGR 2.0 genes in this pathway
BIOCARTA SALMONELLA PATHWAY 1310All SZGR 2.0 genes in this pathway
BIOCARTA MPR PATHWAY 3428All SZGR 2.0 genes in this pathway
BIOCARTA RHO PATHWAY 3223All SZGR 2.0 genes in this pathway
BIOCARTA CDC42RAC PATHWAY 1613All SZGR 2.0 genes in this pathway
BIOCARTA ACTINY PATHWAY 2014All SZGR 2.0 genes in this pathway
PID CDC42 PATHWAY 7051All SZGR 2.0 genes in this pathway
PID ERBB1 DOWNSTREAM PATHWAY 10578All SZGR 2.0 genes in this pathway
PID PDGFRB PATHWAY 129103All SZGR 2.0 genes in this pathway
PID RAC1 PATHWAY 5437All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION UP 1278748All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN 584395All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK 1442892All SZGR 2.0 genes in this pathway
RICKMAN METASTASIS DN 261155All SZGR 2.0 genes in this pathway
BENPORATH OCT4 TARGETS 290172All SZGR 2.0 genes in this pathway
DORSAM HOXA9 TARGETS UP 3525All SZGR 2.0 genes in this pathway
LU IL4 SIGNALING 9456All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS 882572All SZGR 2.0 genes in this pathway
PENG GLUCOSE DEPRIVATION DN 169112All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP 555346All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA DN 408274All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN 1237837All SZGR 2.0 genes in this pathway
JIANG HYPOXIA CANCER 8352All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1 528324All SZGR 2.0 genes in this pathway
ACEVEDO NORMAL TISSUE ADJACENT TO LIVER TUMOR UP 17496All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP 973570All SZGR 2.0 genes in this pathway
WANG TUMOR INVASIVENESS UP 374247All SZGR 2.0 genes in this pathway
CHAUHAN RESPONSE TO METHOXYESTRADIOL DN 10265All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210725All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 17 181101All SZGR 2.0 genes in this pathway
IKEDA MIR133 TARGETS UP 4327All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG BOUND 8D 658397All SZGR 2.0 genes in this pathway
ALFANO MYC TARGETS 239156All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-124.1865871m8hsa-miR-124aUUAAGGCACGCGGUGAAUGCCA
miR-124/5068658711Ahsa-miR-506UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brainUAAGGCACGCGGUGAAUGCC
miR-141/200a933939m8hsa-miR-141UAACACUGUCUGGUAAAGAUGG
hsa-miR-200aUAACACUGUCUGGUAACGAUGU
miR-145459465m8hsa-miR-145GUCCAGUUUUCCCAGGAAUCCCUU
miR-1901481551A,m8hsa-miR-190UGAUAUGUUUGAUAUAUUAGGU
miR-193379385m8hsa-miR-193aAACUGGCCUACAAAGUCCCAG
hsa-miR-193bAACUGGCCCUCAAAGUCCCGCUUU
miR-320104110m8hsa-miR-320AAAAGCUGGGUUGAGAGGGCGAA