Gene Page: PCDH9

Summary ?
GeneID5101
SymbolPCDH9
Synonyms-
Descriptionprotocadherin 9
ReferenceMIM:603581|HGNC:HGNC:8661|Ensembl:ENSG00000184226|HPRD:04661|Vega:OTTHUMG00000017040
Gene typeprotein-coding
Map location13q21.32
Pascal p-value3.949E-4
Sherlock p-value0.227
DEG p-valueDEG:Zhao_2015:p=5.41e-05:q=0.0489
Fetal beta-2.838
eGeneMyers' cis & trans
SupportCompositeSet
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
DEG:Zhao_2015RNA Sequencing analysisTranscriptome sequencing and genome-wide association analyses reveal lysosomal function and actin cytoskeleton remodeling in schizophrenia and bipolar disorder.
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs9355389chr6162623892PCDH951010.17trans

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.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0005509calcium ion bindingIEA-
GO:0005515protein bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007155cell adhesionIEA-
GO:0007156homophilic cell adhesionIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0016020membraneIEA-
GO:0016021integral to membraneIEA-
GO:0005886plasma membraneIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
PARENT MTOR SIGNALING UP 567375All SZGR 2.0 genes in this pathway
LIU PROSTATE CANCER DN 481290All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY DN 367220All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 6HR UP 8554All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 3D UP 182110All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 8D UP 15791All SZGR 2.0 genes in this pathway
SABATES COLORECTAL ADENOMA DN 291176All SZGR 2.0 genes in this pathway
GRAHAM CML QUIESCENT VS CML DIVIDING UP 2313All SZGR 2.0 genes in this pathway
GRAHAM CML QUIESCENT VS NORMAL QUIESCENT DN 4732All SZGR 2.0 genes in this pathway
GRAHAM CML DIVIDING VS NORMAL DIVIDING DN 106All SZGR 2.0 genes in this pathway
GRAHAM CML DIVIDING VS NORMAL QUIESCENT DN 9557All SZGR 2.0 genes in this pathway
GRAHAM NORMAL QUIESCENT VS NORMAL DIVIDING UP 6647All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821933All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 XPCS UP 2816All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 TTD UP 6439All SZGR 2.0 genes in this pathway
YORDY RECIPROCAL REGULATION BY ETS1 AND SP100 DN 8748All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 UP 309199All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR UP 487286All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 UP 256159All SZGR 2.0 genes in this pathway
LIN APC TARGETS 7755All SZGR 2.0 genes in this pathway
ROSS AML OF FAB M7 TYPE 6844All SZGR 2.0 genes in this pathway
HASLINGER B CLL WITH MUTATED VH GENES 1814All SZGR 2.0 genes in this pathway
ALCALAY AML BY NPM1 LOCALIZATION UP 14083All SZGR 2.0 genes in this pathway
HADDAD B LYMPHOCYTE PROGENITOR 293193All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 20HR UP 240152All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL LONG TERM 302191All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 16911088All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 UP 428266All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 10HR UP 10169All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION UP 461298All SZGR 2.0 genes in this pathway
SARRIO EPITHELIAL MESENCHYMAL TRANSITION DN 154101All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR UP 430288All SZGR 2.0 genes in this pathway
BASSO HAIRY CELL LEUKEMIA DN 8066All SZGR 2.0 genes in this pathway
BONCI TARGETS OF MIR15A AND MIR16 1 9175All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP 260174All SZGR 2.0 genes in this pathway
ALONSO METASTASIS EMT DN 55All SZGR 2.0 genes in this pathway
ALONSO METASTASIS DN 2617All SZGR 2.0 genes in this pathway
YAUCH HEDGEHOG SIGNALING PARACRINE DN 264159All SZGR 2.0 genes in this pathway
WU ALZHEIMER DISEASE UP 148All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS DN 442275All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 1 2819All SZGR 2.0 genes in this pathway
CHIARETTI T ALL REFRACTORY TO THERAPY 3018All SZGR 2.0 genes in this pathway
MIKKELSEN NPC ICP WITH H3K4ME3 445257All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 24HR DN 505328All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR DN 244157All SZGR 2.0 genes in this pathway
HOLLEMAN DAUNORUBICIN B ALL UP 109All SZGR 2.0 genes in this pathway
DURAND STROMA NS UP 162103All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-124/50611861192m8hsa-miR-506UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brainUAAGGCACGCGGUGAAUGCC
miR-138130613121Ahsa-miR-138brainAGCUGGUGUUGUGAAUC
miR-141/200a114711531Ahsa-miR-141UAACACUGUCUGGUAAAGAUGG
hsa-miR-200aUAACACUGUCUGGUAACGAUGU
hsa-miR-141UAACACUGUCUGGUAAAGAUGG
hsa-miR-200aUAACACUGUCUGGUAACGAUGU
miR-15/16/195/424/4972772841A,m8hsa-miR-15abrainUAGCAGCACAUAAUGGUUUGUG
hsa-miR-16brainUAGCAGCACGUAAAUAUUGGCG
hsa-miR-15bbrainUAGCAGCACAUCAUGGUUUACA
hsa-miR-195SZUAGCAGCACAGAAAUAUUGGC
hsa-miR-424CAGCAGCAAUUCAUGUUUUGAA
hsa-miR-497CAGCAGCACACUGUGGUUUGU
miR-1554594661A,m8hsa-miR-155UUAAUGCUAAUCGUGAUAGGGG
miR-1852132191Ahsa-miR-185brainUGGAGAGAAAGGCAGUUC
miR-188123912461A,m8hsa-miR-188CAUCCCUUGCAUGGUGGAGGGU
miR-190345351m8hsa-miR-190UGAUAUGUUUGAUAUAUUAGGU
miR-204/21112381244m8hsa-miR-204brainUUCCCUUUGUCAUCCUAUGCCU
hsa-miR-211UUCCCUUUGUCAUCCUUCGCCU
miR-25/32/92/363/367179718031Ahsa-miR-25brainCAUUGCACUUGUCUCGGUCUGA
hsa-miR-32UAUUGCACAUUACUAAGUUGC
hsa-miR-92UAUUGCACUUGUCCCGGCCUG
hsa-miR-367AAUUGCACUUUAGCAAUGGUGA
hsa-miR-92bSZUAUUGCACUCGUCCCGGCCUC
miR-26421427m8hsa-miR-26abrainUUCAAGUAAUCCAGGAUAGGC
hsa-miR-26bSZUUCAAGUAAUUCAGGAUAGGUU
miR-32060661Ahsa-miR-320AAAAGCUGGGUUGAGAGGGCGAA
miR-32311771183m8hsa-miR-323brainGCACAUUACACGGUCGACCUCU
miR-3251962021Ahsa-miR-325CCUAGUAGGUGUCCAGUAAGUGU
miR-3262172231Ahsa-miR-326CCUCUGGGCCCUUCCUCCAG
miR-33517921798m8hsa-miR-335brainUCAAGAGCAAUAACGAAAAAUGU
miR-36115711577m8hsa-miR-361brainUUAUCAGAAUCUCCAGGGGUAC
miR-363137313801A,m8hsa-miR-363AUUGCACGGUAUCCAUCUGUAA
miR-3762822881Ahsa-miR-376aAUCAUAGAGGAAAAUCCACGU
hsa-miR-376bAUCAUAGAGGAAAAUCCAUGUU
miR-409-3p12061212m8hsa-miR-409-3pCGAAUGUUGCUCGGUGAACCCCU
hsa-miR-409-3pCGAAUGUUGCUCGGUGAACCCCU
miR-448296302m8hsa-miR-448UUGCAUAUGUAGGAUGUCCCAU
miR-452137513821A,m8hsa-miR-452UGUUUGCAGAGGAAACUGAGAC
miR-495141214181Ahsa-miR-495brainAAACAAACAUGGUGCACUUCUUU
miR-5032782841Ahsa-miR-503UAGCAGCGGGAACAGUUCUGCAG
miR-505109010961Ahsa-miR-505GUCAACACUUGCUGGUUUCCUC
hsa-miR-505GUCAACACUUGCUGGUUUCCUC
miR-543134913551Ahsa-miR-543AAACAUUCGCGGUGCACUUCU