Gene Page: HCP5

Summary ?
GeneID10866
SymbolHCP5
Synonyms6S2650E|D6S2650E|P5-1
DescriptionHLA complex P5 (non-protein coding)
ReferenceMIM:604676|HGNC:HGNC:21659|Ensembl:ENSG00000206337|HPRD:05245|
Gene typencRNA
Map location6p21.3
Pascal p-value2.697E-9
Fetal beta-0.026
DMG1 (# studies)
eGeneCerebellar Hemisphere
Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
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). 1
GSMA_IGenome scan meta-analysisPsr: 0.033 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg06480496631430675HCP55.705E-4-0.4820.049DMG:Wockner_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs12087645chr118509666HCP5108660.08trans
rs16852306chr2167417804HCP5108660.06trans
rs10505414chr8122940787HCP5108660.01trans
rs10990447chr998412986HCP5108660.19trans
rs1955728chr1439976063HCP5108660.15trans

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
SELPLG0.560.50
TBXAS10.540.52
ITGAM0.530.47
C3AR10.530.53
CD740.530.46
LAPTM50.520.53
ALOX5AP0.520.49
HLA-DRA0.510.44
LILRB10.510.45
HLA-DPA10.500.47
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
GTF3C6-0.27-0.24
BCL7C-0.26-0.26
SH3BP2-0.25-0.24
PLEKHO1-0.25-0.19
TTLL2-0.25-0.18
RBMX2-0.24-0.25
EXOSC8-0.24-0.23
CCDC28B-0.24-0.27
RP9P-0.24-0.36
AS3MT-0.24-0.20

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
HOLLMANN APOPTOSIS VIA CD40 DN 267178All SZGR 2.0 genes in this pathway
BERTUCCI MEDULLARY VS DUCTAL BREAST CANCER UP 206111All SZGR 2.0 genes in this pathway
GRAHAM CML DIVIDING VS NORMAL QUIESCENT DN 9557All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS UP 293179All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK 1442892All SZGR 2.0 genes in this pathway
BENPORATH CYCLING GENES 648385All SZGR 2.0 genes in this pathway
SUNG METASTASIS STROMA DN 5434All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 1 UP 14085All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA UP 6446All SZGR 2.0 genes in this pathway
HADDAD B LYMPHOCYTE PROGENITOR 293193All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP 973570All SZGR 2.0 genes in this pathway
MITSIADES RESPONSE TO APLIDIN UP 439257All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL DN 216143All SZGR 2.0 genes in this pathway
LEE EARLY T LYMPHOCYTE DN 5736All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA CLASSES DN 210141All SZGR 2.0 genes in this pathway
KYNG RESPONSE TO H2O2 VIA ERCC6 DN 4631All SZGR 2.0 genes in this pathway
KUMAR PATHOGEN LOAD BY MACROPHAGES 275155All SZGR 2.0 genes in this pathway
KUMAR AUTOPHAGY NETWORK 7146All SZGR 2.0 genes in this pathway
ZWANG EGF INTERVAL DN 214124All SZGR 2.0 genes in this pathway