Gene Page:NCAM1

Summary?
GeneID 4684
Symbol NCAM1
Synonyms CD56|MSK39|NCAM
Description neural cell adhesion molecule 1
Reference MIM:116930|HGNC:HGNC:7656|Ensembl:ENSG00000149294|HPRD:00301|Vega:OTTHUMG00000167196
Gene type protein-coding
Map location 11q23.1
Pascal p-value 1.166E-4
Sherlock p-value 0.919
Fetal beta 0.625
eGene Myers' cis & trans
Support CELL ADHESION AND TRANSSYNAPTIC SIGNALING
G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS
G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL
G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS
G2Cdb.human_clathrin
G2Cdb.human_Synaptosome
CompositeSet
Darnell FMRP targets
Potential synaptic genes

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:GWASdb Genome-wide Association Studies GWASdb records for schizophrenia
CV:PGCnp Genome-wide Association Study GWAS
PMID:cooccur High-throughput literature-search 系统的搜索PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_I Genome scan meta-analysis Psr: 0.006
Literature High-throughput literature-search Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenics,schizophrenias Click to show details
GO_Annotation Mapping neuro-related keywords to Gene Ontology annotations Hits with neuro-related keywords: 1
Network Shortest path distance of core genes in the Human protein-protein interaction network Contribution to shortest path in PPI network: 0.0233

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs6733654 chr2 1963270 NCAM1 4684 0.12 trans
rs17029291 chr3 32402138 NCAM1 4684 6.899E-6 trans
rs1553189 chr3 112939422 NCAM1 4684 0.18 trans
rs10992675 chr9 95963315 NCAM1 4684 0.2 trans
rs4607971 chr10 19407890 NCAM1 4684 0.07 trans
rs7111397 chr11 20133985 NCAM1 4684 0.12 trans
rs1761450 chr19 54818034 NCAM1 4684 0.07 trans
rs6040268 chr20 10956100 NCAM1 4684 0.14 trans
rs6040269 chr20 10956136 NCAM1 4684 0.14 trans
rs11906936 chr20 10957136 NCAM1 4684 0.14 trans
rs1327232 chr20 10958909 NCAM1 4684 0.12 trans
rs12157904 chr22 37982011 NCAM1 4684 0.06 trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

基因表达在发展脉络(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
Gene Pearson's Correlation Spearman's Correlation
MRPL21 0.89 0.82
JTB 0.89 0.77
C14orf2 0.87 0.74
MRPL33 0.86 0.65
UQCRQ 0.86 0.71
C17orf61 0.86 0.70
COX5A 0.86 0.72
NDUFA2 0.85 0.72
HAX1 0.85 0.73
AC009171.1 0.85 0.73
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
MYH9 -0.47 -0.42
BAT2D1 -0.43 -0.37
MMRN2 -0.42 -0.40
PLEC1 -0.41 -0.44
PRX -0.39 -0.45
ITIH5 -0.39 -0.42
Z83840.4 -0.39 -0.45
AC010300.1 -0.38 -0.57
KIF16B -0.38 -0.38
RRBP1 -0.38 -0.45

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0005515 protein binding IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0007155 cell adhesion IEA -
GO:0007155 cell adhesion NAS 10770948
GO:0007166 cell surface receptor linked signal transduction IEA -
GO:0034109 homotypic cell-cell adhesion IEA -
GO:0050850 positive regulation of calcium-mediated signaling IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0030424 axon IEA neuron, axon, Neurotransmitter (GO term level: 6) -
GO:0005576 extracellular region IEA -
GO:0016020 membrane IEA -
GO:0016021 integral to membrane TAS 3576199
GO:0009897 external side of plasma membrane IEA -
GO:0005886 plasma membrane TAS 3576199
GO:0031225 anchored to membrane IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG CELL ADHESION MOLECULES CAMS 134 93 All SZGR 2.0 genes in this pathway
KEGG PRION DISEASES 35 28 All SZGR 2.0 genes in this pathway
PID FGF PATHWAY 55 37 All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY 396 292 All SZGR 2.0 genes in this pathway
REACTOME AXON GUIDANCE 251 188 All SZGR 2.0 genes in this pathway
REACTOME NCAM1 INTERACTIONS 39 27 All SZGR 2.0 genes in this pathway
REACTOME NCAM SIGNALING FOR NEURITE OUT GROWTH 64 49 All SZGR 2.0 genes in this pathway
REACTOME L1CAM INTERACTIONS 86 62 All SZGR 2.0 genes in this pathway
REACTOME SIGNAL TRANSDUCTION BY L1 34 25 All SZGR 2.0 genes in this pathway
REACTOME INTERFERON GAMMA SIGNALING 63 48 All SZGR 2.0 genes in this pathway
REACTOME INTERFERON SIGNALING 159 116 All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM 933 616 All SZGR 2.0 genes in this pathway
REACTOME CYTOKINE SIGNALING IN IMMUNE SYSTEM 270 204 All SZGR 2.0 genes in this pathway
NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL UP 285 181 All SZGR 2.0 genes in this pathway
LIU PROSTATE CANCER DN 481 290 All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY DN 367 220 All SZGR 2.0 genes in this pathway
JAEGER METASTASIS UP 44 23 All SZGR 2.0 genes in this pathway
ODONNELL TFRC TARGETS UP 456 228 All SZGR 2.0 genes in this pathway
HAHTOLA SEZARY SYNDROM DN 42 26 All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER DN 232 154 All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION KRAS UP 126 72 All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION CDC25 UP 120 73 All SZGR 2.0 genes in this pathway
CASTELLANO NRAS TARGETS DN 14 14 All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS A UP 191 128 All SZGR 2.0 genes in this pathway
SILIGAN TARGETS OF EWS FLI1 FUSION UP 15 12 All SZGR 2.0 genes in this pathway
EBAUER TARGETS OF PAX3 FOXO1 FUSION UP 207 128 All SZGR 2.0 genes in this pathway
DAWSON METHYLATED IN LYMPHOMA TCL1 59 45 All SZGR 2.0 genes in this pathway
LI WILMS TUMOR VS FETAL KIDNEY 2 UP 30 24 All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM5 94 59 All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS 957 597 All SZGR 2.0 genes in this pathway
WOTTON RUNX TARGETS UP 21 14 All SZGR 2.0 genes in this pathway
GOTZMANN EPITHELIAL TO MESENCHYMAL TRANSITION UP 69 55 All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS 1038 678 All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062 725 All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118 744 All SZGR 2.0 genes in this pathway
BENPORATH PRC2 TARGETS 652 441 All SZGR 2.0 genes in this pathway
LEE TARGETS OF PTCH1 AND SUFU DN 83 69 All SZGR 2.0 genes in this pathway
ROZANOV MMP14 TARGETS UP 266 171 All SZGR 2.0 genes in this pathway
LEI HOXC8 TARGETS DN 17 13 All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST UP 398 262 All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS 882 572 All SZGR 2.0 genes in this pathway
YAO HOXA10 TARGETS VIA PROGESTERONE UP 79 58 All SZGR 2.0 genes in this pathway
WANG TARGETS OF MLL CBP FUSION UP 44 26 All SZGR 2.0 genes in this pathway
VERHAAK AML WITH NPM1 MUTATED DN 246 180 All SZGR 2.0 genes in this pathway
YAGI AML FAB MARKERS 191 131 All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA UP 98 64 All SZGR 2.0 genes in this pathway
RAMALHO STEMNESS DN 74 55 All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS UP 37 27 All SZGR 2.0 genes in this pathway
PAL PRMT5 TARGETS UP 203 135 All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS NEONATAL 35 25 All SZGR 2.0 genes in this pathway
KAYO AGING MUSCLE UP 244 165 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 1691 1088 All SZGR 2.0 genes in this pathway
KIM GASTRIC CANCER CHEMOSENSITIVITY 103 64 All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS 8 86 57 All SZGR 2.0 genes in this pathway
TAKAO RESPONSE TO UVB RADIATION DN 98 67 All SZGR 2.0 genes in this pathway
KUNINGER IGF1 VS PDGFB TARGETS UP 82 51 All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 UP 428 266 All SZGR 2.0 genes in this pathway
SIMBULAN PARP1 TARGETS DN 17 10 All SZGR 2.0 genes in this pathway
JI CARCINOGENESIS BY KRAS AND STK11 DN 17 12 All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS UP 317 208 All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION UP 461 298 All SZGR 2.0 genes in this pathway
DAIRKEE CANCER PRONE RESPONSE BPA E2 118 65 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL UP 648 398 All SZGR 2.0 genes in this pathway
RAY TUMORIGENESIS BY ERBB2 CDC25A UP 104 57 All SZGR 2.0 genes in this pathway
MOOTHA PGC 420 269 All SZGR 2.0 genes in this pathway
NUTT GBM VS AO GLIOMA DN 45 22 All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN 668 419 All SZGR 2.0 genes in this pathway
DANG REGULATED BY MYC DN 253 192 All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE 721 492 All SZGR 2.0 genes in this pathway
NAKAYAMA SOFT TISSUE TUMORS PCA2 UP 87 50 All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 0 76 54 All SZGR 2.0 genes in this pathway
VERHAAK GLIOBLASTOMA PRONEURAL 177 132 All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS UP 116 87 All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS DN 27 24 All SZGR 2.0 genes in this pathway
ABDELMOHSEN ELAVL4 TARGETS 16 13 All SZGR 2.0 genes in this pathway
ACEVEDO FGFR1 TARGETS IN PROSTATE CANCER MODEL DN 308 187 All SZGR 2.0 genes in this pathway
DURAND STROMA S UP 297 194 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-125/351 1262 1268 1A hsa-miR-125bbrain UCCCUGAGACCCUAACUUGUGA
hsa-miR-125abrain UCCCUGAGACCCUUUAACCUGUG
miR-128 1902 1908 1A hsa-miR-128a UCACAGUGAACCGGUCUCUUUU
hsa-miR-128b UCACAGUGAACCGGUCUCUUUC
hsa-miR-128a UCACAGUGAACCGGUCUCUUUU
hsa-miR-128b UCACAGUGAACCGGUCUCUUUC
miR-136 1976 1982 m8 hsa-miR-136 ACUCCAUUUGUUUUGAUGAUGGA
miR-148/152 1532 1538 m8 hsa-miR-148a UCAGUGCACUACAGAACUUUGU
hsa-miR-152brain UCAGUGCAUGACAGAACUUGGG
hsa-miR-148b UCAGUGCAUCACAGAACUUUGU
miR-182 611 617 1A hsa-miR-182 UUUGGCAAUGGUAGAACUCACA
miR-204/211 1459 1465 1A hsa-miR-204brain UUCCCUUUGUCAUCCUAUGCCU
hsa-miR-211 UUCCCUUUGUCAUCCUUCGCCU
miR-205 1083 1089 1A hsa-miR-205 UCCUUCAUUCCACCGGAGUCUG
miR-27 1902 1909 1A,m8 hsa-miR-27abrain UUCACAGUGGCUAAGUUCCGC
hsa-miR-27bbrain UUCACAGUGGCUAAGUUCUGC
miR-30-5p 721 728 1A,m8 hsa-miR-30a-5p UGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrain UGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZ UGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZ UGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5p UGUAAACAUCCUUGACUGGA
hsa-miR-30a-5p UGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrain UGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZ UGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZ UGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5p UGUAAACAUCCUUGACUGGA
miR-377 1558 1564 1A hsa-miR-377 AUCACACAAAGGCAACUUUUGU
miR-378 1647 1653 1A hsa-miR-378 CUCCUGACUCCAGGUCCUGUGU
miR-381 1123 1129 1A hsa-miR-381 UAUACAAGGGCAAGCUCUCUGU
hsa-miR-381 UAUACAAGGGCAAGCUCUCUGU
miR-384 333 339 m8 hsa-miR-384 AUUCCUAGAAAUUGUUCAUA
miR-505 1102 1108 1A hsa-miR-505 GUCAACACUUGCUGGUUUCCUC
miR-539 1954 1960 1A hsa-miR-539 GGAGAAAUUAUCCUUGGUGUGU
miR-96 611 617 1A hsa-miR-96brain UUUGGCACUAGCACAUUUUUGC