Gene Page: NCK2
Summary ?
GeneID | 8440 |
Symbol | NCK2 |
Synonyms | GRB4|NCKbeta |
Description | NCK adaptor protein 2 |
Reference | MIM:604930|HGNC:HGNC:7665|Ensembl:ENSG00000071051|HPRD:05378|Vega:OTTHUMG00000153116 |
Gene type | protein-coding |
Map location | 2q12 |
Pascal p-value | 0.032 |
Fetal beta | 0.824 |
DMG | 1 (# studies) |
eGene | Myers' cis & trans |
Gene in Data Sources
Gene set name | Method of gene set | Description | Info |
---|---|---|---|
CV:PGCnp | Genome-wide Association Study | GWAS | |
DMG:Wockner_2014 | Genome-wide DNA methylation analysis | This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). | 1 |
GSMA_I | Genome scan meta-analysis | Psr: 0.0004 | |
GSMA_IIA | Genome scan meta-analysis (All samples) | Psr: 0.00755 | |
Network | Shortest path distance of core genes in the Human protein-protein interaction network | Contribution to shortest path in PPI network: 0.0995 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
---|---|---|---|---|---|---|---|
cg20268893 | 2 | 106362547 | NCK2 | 6.85E-5 | 0.764 | 0.024 | DMG:Wockner_2014 |
eQTL annotation
SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
---|---|---|---|---|---|---|---|---|
rs12447283 | chr16 | 65595638 | NCK2 | 8440 | 0.19 | trans |
Section II. Transcriptome annotation
General gene expression (GTEx)
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 | ||
Gene | Pearson's Correlation | Spearman's Correlation |
SLC12A5 | 0.97 | 0.90 |
EHD3 | 0.96 | 0.90 |
MAP1A | 0.96 | 0.93 |
SCN2B | 0.95 | 0.92 |
RAB11FIP5 | 0.95 | 0.82 |
IQSEC3 | 0.94 | 0.90 |
ZFYVE28 | 0.94 | 0.91 |
PTPRN | 0.93 | 0.90 |
LYNX1 | 0.93 | 0.91 |
RPH3A | 0.93 | 0.94 |
Top 10 negatively co-expressed genes | ||
Gene | Pearson's Correlation | Spearman's Correlation |
BCL7C | -0.58 | -0.69 |
C9orf46 | -0.55 | -0.64 |
GTF3C6 | -0.54 | -0.57 |
TRAF4 | -0.54 | -0.63 |
RPL23A | -0.53 | -0.66 |
TUBB2B | -0.52 | -0.60 |
EXOSC8 | -0.52 | -0.56 |
FADS2 | -0.52 | -0.47 |
DYNLT1 | -0.52 | -0.69 |
KIAA1949 | -0.52 | -0.47 |
Section III. Gene Ontology annotation
Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
---|---|---|---|---|
GO:0005515 | protein binding | IPI | 12110186 | |
GO:0008093 | cytoskeletal adaptor activity | NAS | 12110186 | |
GO:0030159 | receptor signaling complex scaffold activity | NAS | 12110186 | |
Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
GO:0006417 | regulation of translation | IEA | - | |
GO:0007176 | regulation of epidermal growth factor receptor activity | TAS | 9737977 | |
GO:0007173 | epidermal growth factor receptor signaling pathway | TAS | 9737977 | |
GO:0007172 | signal complex assembly | NAS | 12110186 | |
GO:0007165 | signal transduction | TAS | 9737977 | |
GO:0008285 | negative regulation of cell proliferation | TAS | 9737977 | |
GO:0007015 | actin filament organization | IEA | - | |
GO:0016477 | cell migration | IEA | - | |
GO:0042110 | T cell activation | NAS | 12110186 | |
GO:0042102 | positive regulation of T cell proliferation | IMP | 12110186 | |
GO:0030838 | positive regulation of actin filament polymerization | IMP | 12110186 | |
GO:0030032 | lamellipodium biogenesis | IEA | - | |
Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
GO:0012506 | vesicle membrane | IEA | - | |
GO:0005737 | cytoplasm | NAS | 12110186 | |
GO:0005783 | endoplasmic reticulum | IEA | - |
Section IV. Protein-protein interaction annotation
Interactors | Aliases B | Official full name B | Experimental | Source | PubMed ID |
---|---|---|---|---|---|
ABI1 | ABI-1 | E3B1 | NAP1BP | SSH3BP | SSH3BP1 | abl-interactor 1 | - | HPRD | 11557983 |
ABI2 | ABI-2 | ABI2B | AIP-1 | AblBP3 | SSH3BP2 | argBPIA | argBPIB | abl interactor 2 | Two-hybrid | BioGRID | 16189514 |
AXIN1 | AXIN | MGC52315 | axin 1 | - | HPRD | 11557983 |
AXL | JTK11 | UFO | AXL receptor tyrosine kinase | Axl interacts with an unspecified isoform of Nck2. | BIND | 12470648 |
BCR | ALL | BCR-ABL1 | BCR1 | CML | D22S11 | D22S662 | FLJ16453 | PHL | breakpoint cluster region | - | HPRD | 10887126 |
CBLB | DKFZp686J10223 | DKFZp779A0729 | DKFZp779F1443 | FLJ36865 | FLJ41152 | Nbla00127 | RNF56 | Cas-Br-M (murine) ecotropic retroviral transforming sequence b | Two-hybrid | BioGRID | 16189514 |
CD3E | FLJ18683 | T3E | TCRE | CD3e molecule, epsilon (CD3-TCR complex) | - | HPRD,BioGRID | 12110186 |
CPSF6 | CFIM | CFIM68 | HPBRII-4 | HPBRII-7 | cleavage and polyadenylation specific factor 6, 68kDa | Two-hybrid | BioGRID | 16189514 |
DNM1 | DNM | dynamin 1 | - | HPRD | 11557983 |
DOCK1 | DOCK180 | ced5 | dedicator of cytokinesis 1 | - | HPRD,BioGRID | 11240126 |
DOK1 | MGC117395 | MGC138860 | P62DOK | docking protein 1, 62kDa (downstream of tyrosine kinase 1) | - | HPRD,BioGRID | 9737977 |
EEF1G | EF1G | GIG35 | eukaryotic translation elongation factor 1 gamma | Two-hybrid | BioGRID | 16169070 |
EFNB1 | CFND | CFNS | EFL3 | EPLG2 | Elk-L | LERK2 | MGC8782 | ephrin-B1 | - | HPRD | 11557983 |
EFNB2 | EPLG5 | HTKL | Htk-L | LERK5 | MGC126226 | MGC126227 | MGC126228 | ephrin-B2 | - | HPRD | 12206665 |
EGFR | ERBB | ERBB1 | HER1 | PIG61 | mENA | epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian) | Affinity Capture-Western Reconstituted Complex | BioGRID | 9737977 |10026169 |
EGFR | ERBB | ERBB1 | HER1 | PIG61 | mENA | epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian) | - | HPRD | 1333047 |9737977 |
FGFR1 | BFGFR | CD331 | CEK | FGFBR | FLG | FLJ99988 | FLT2 | HBGFR | KAL2 | N-SAM | fibroblast growth factor receptor 1 | An unspecified isoform of FGFR1 interacts with NCK2. This interaction was modeled on a demonstrated interaction between FGFR1 from an unspecified species and human NCK2. | BIND | 15117958 |
FLJ12529 | FLJ39024 | MGC9315 | pre-mRNA cleavage factor I, 59 kDa subunit | Two-hybrid | BioGRID | 16189514 |
FXR2 | FMR1L2 | fragile X mental retardation, autosomal homolog 2 | Two-hybrid | BioGRID | 16189514 |
HNRNPK | CSBP | FLJ41122 | HNRPK | TUNP | heterogeneous nuclear ribonucleoprotein K | - | HPRD | 11557983 |
HNRNPK | CSBP | FLJ41122 | HNRPK | TUNP | heterogeneous nuclear ribonucleoprotein K | Two-hybrid | BioGRID | 16189514 |
ILK | DKFZp686F1765 | P59 | integrin-linked kinase | - | HPRD,BioGRID | 10022929 |
KIAA1217 | DKFZp761L0424 | MGC31990 | SKT | KIAA1217 | Two-hybrid | BioGRID | 16189514 |
LIMS1 | PINCH | PINCH1 | LIM and senescent cell antigen-like domains 1 | Nck-2 interacts with PINCH | BIND | 9843575 |
LIMS1 | PINCH | PINCH1 | LIM and senescent cell antigen-like domains 1 | - | HPRD,BioGRID | 9843575 |
NCKIPSD | AF3P21 | DIP | DIP1 | MGC23891 | ORF1 | SPIN90 | WASLBP | WISH | NCK interacting protein with SH3 domain | Two-hybrid | BioGRID | 16189514 |
NTRK2 | GP145-TrkB | TRKB | neurotrophic tyrosine kinase, receptor, type 2 | - | HPRD,BioGRID | 12074588 |
PAK1 | MGC130000 | MGC130001 | PAKalpha | p21 protein (Cdc42/Rac)-activated kinase 1 | - | HPRD,BioGRID | 10026169 |11557983 |
PDGFRB | CD140B | JTK12 | PDGF-R-beta | PDGFR | PDGFR1 | platelet-derived growth factor receptor, beta polypeptide | - | HPRD,BioGRID | 11027258 |
PKN2 | MGC150606 | MGC71074 | PAK2 | PRK2 | PRKCL2 | PRO2042 | Pak-2 | protein kinase N2 | - | HPRD,BioGRID | 10026169 |
PTK2 | FADK | FAK | FAK1 | pp125FAK | PTK2 protein tyrosine kinase 2 | - | HPRD,BioGRID | 11950595 |
SF3B4 | MGC10828 | SAP49 | SF3b49 | splicing factor 3b, subunit 4, 49kDa | Two-hybrid | BioGRID | 16189514 |
SOS1 | GF1 | GGF1 | GINGF | HGF | NS4 | son of sevenless homolog 1 (Drosophila) | - | HPRD,BioGRID | 10026169 |
TRIP6 | MGC10556 | MGC10558 | MGC29959 | MGC3837 | MGC4423 | OIP1 | ZRP-1 | thyroid hormone receptor interactor 6 | Two-hybrid | BioGRID | 16189514 |
WBP11 | DKFZp779M1063 | NPWBP | SIPP1 | WW domain binding protein 11 | Two-hybrid | BioGRID | 16189514 |
WIPF2 | WICH | WIRE | WAS/WASL interacting protein family, member 2 | - | HPRD,BioGRID | 12213210 |
Section V. Pathway annotation
Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
---|---|---|---|
KEGG ERBB SIGNALING PATHWAY | 87 | 71 | All SZGR 2.0 genes in this pathway |
KEGG AXON GUIDANCE | 129 | 103 | All SZGR 2.0 genes in this pathway |
KEGG T CELL RECEPTOR SIGNALING PATHWAY | 108 | 89 | All SZGR 2.0 genes in this pathway |
KEGG PATHOGENIC ESCHERICHIA COLI INFECTION | 59 | 36 | All SZGR 2.0 genes in this pathway |
PID INSULIN PATHWAY | 45 | 32 | All SZGR 2.0 genes in this pathway |
PID MET PATHWAY | 80 | 60 | All SZGR 2.0 genes in this pathway |
PID REELIN PATHWAY | 29 | 29 | All SZGR 2.0 genes in this pathway |
PID ILK PATHWAY | 45 | 32 | All SZGR 2.0 genes in this pathway |
PID IGF1 PATHWAY | 30 | 23 | All SZGR 2.0 genes in this pathway |
PID ERBB1 RECEPTOR PROXIMAL PATHWAY | 35 | 29 | All SZGR 2.0 genes in this pathway |
PID PDGFRB PATHWAY | 129 | 103 | All SZGR 2.0 genes in this pathway |
PID NEPHRIN NEPH1 PATHWAY | 31 | 24 | All SZGR 2.0 genes in this pathway |
PID VEGFR1 2 PATHWAY | 69 | 57 | All SZGR 2.0 genes in this pathway |
PID EPHRINB REV PATHWAY | 30 | 25 | All SZGR 2.0 genes in this pathway |
PID FAK PATHWAY | 59 | 45 | All SZGR 2.0 genes in this pathway |
REACTOME DEVELOPMENTAL BIOLOGY | 396 | 292 | All SZGR 2.0 genes in this pathway |
REACTOME CELL CELL COMMUNICATION | 120 | 77 | All SZGR 2.0 genes in this pathway |
REACTOME SIGNALING BY PDGF | 122 | 93 | All SZGR 2.0 genes in this pathway |
REACTOME DOWNSTREAM SIGNAL TRANSDUCTION | 95 | 76 | All SZGR 2.0 genes in this pathway |
REACTOME AXON GUIDANCE | 251 | 188 | All SZGR 2.0 genes in this pathway |
REACTOME ACTIVATION OF RAC | 14 | 11 | All SZGR 2.0 genes in this pathway |
REACTOME SIGNALING BY ROBO RECEPTOR | 30 | 26 | All SZGR 2.0 genes in this pathway |
REACTOME NEPHRIN INTERACTIONS | 20 | 15 | All SZGR 2.0 genes in this pathway |
ZHOU INFLAMMATORY RESPONSE LIVE UP | 485 | 293 | All SZGR 2.0 genes in this pathway |
BORCZUK MALIGNANT MESOTHELIOMA DN | 104 | 59 | All SZGR 2.0 genes in this pathway |
ZHOU INFLAMMATORY RESPONSE FIMA UP | 544 | 308 | All SZGR 2.0 genes in this pathway |
HAHTOLA MYCOSIS FUNGOIDES CD4 DN | 116 | 71 | All SZGR 2.0 genes in this pathway |
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN | 1781 | 1082 | All SZGR 2.0 genes in this pathway |
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN DN | 770 | 415 | All SZGR 2.0 genes in this pathway |
MARTORIATI MDM4 TARGETS FETAL LIVER DN | 514 | 319 | All SZGR 2.0 genes in this pathway |
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN | 584 | 395 | All SZGR 2.0 genes in this pathway |
SCHAEFFER PROSTATE DEVELOPMENT 48HR UP | 487 | 286 | All SZGR 2.0 genes in this pathway |
SWEET KRAS TARGETS UP | 84 | 51 | All SZGR 2.0 genes in this pathway |
CUI TCF21 TARGETS 2 DN | 830 | 547 | All SZGR 2.0 genes in this pathway |
SU THYMUS | 20 | 12 | All SZGR 2.0 genes in this pathway |
MONNIER POSTRADIATION TUMOR ESCAPE DN | 373 | 196 | All SZGR 2.0 genes in this pathway |
ZHENG BOUND BY FOXP3 | 491 | 310 | All SZGR 2.0 genes in this pathway |
ZHENG FOXP3 TARGETS IN THYMUS UP | 196 | 137 | All SZGR 2.0 genes in this pathway |
RIGGINS TAMOXIFEN RESISTANCE DN | 220 | 147 | All SZGR 2.0 genes in this pathway |
HANN RESISTANCE TO BCL2 INHIBITOR DN | 48 | 31 | All SZGR 2.0 genes in this pathway |
ACEVEDO METHYLATED IN LIVER CANCER DN | 940 | 425 | All SZGR 2.0 genes in this pathway |
BOYAULT LIVER CANCER SUBCLASS G12 UP | 39 | 17 | All SZGR 2.0 genes in this pathway |
CHIANG LIVER CANCER SUBCLASS PROLIFERATION UP | 178 | 108 | All SZGR 2.0 genes in this pathway |
KAPOSI LIVER CANCER MET UP | 18 | 11 | All SZGR 2.0 genes in this pathway |
YAGI AML WITH INV 16 TRANSLOCATION | 422 | 277 | All SZGR 2.0 genes in this pathway |
CHANDRAN METASTASIS UP | 221 | 135 | All SZGR 2.0 genes in this pathway |
LI INDUCED T TO NATURAL KILLER DN | 116 | 83 | All SZGR 2.0 genes in this pathway |
TORCHIA TARGETS OF EWSR1 FLI1 FUSION DN | 321 | 200 | All SZGR 2.0 genes in this pathway |
DELACROIX RARG BOUND MEF | 367 | 231 | 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-1/206 | 1006 | 1012 | m8 | hsa-miR-1 | UGGAAUGUAAAGAAGUAUGUA |
hsa-miR-206SZ | UGGAAUGUAAGGAAGUGUGUGG | ||||
hsa-miR-613 | AGGAAUGUUCCUUCUUUGCC | ||||
miR-124/506 | 536 | 542 | m8 | hsa-miR-506 | UAAGGCACCCUUCUGAGUAGA |
hsa-miR-124brain | UAAGGCACGCGGUGAAUGCC | ||||
miR-183 | 643 | 649 | m8 | hsa-miR-183 | UAUGGCACUGGUAGAAUUCACUG |
miR-186 | 971 | 977 | 1A | hsa-miR-186 | CAAAGAAUUCUCCUUUUGGGCUU |
miR-200bc/429 | 1085 | 1091 | 1A | hsa-miR-200b | UAAUACUGCCUGGUAAUGAUGAC |
hsa-miR-200c | UAAUACUGCCGGGUAAUGAUGG | ||||
hsa-miR-429 | UAAUACUGUCUGGUAAAACCGU | ||||
miR-25/32/92/363/367 | 555 | 561 | 1A | hsa-miR-25brain | CAUUGCACUUGUCUCGGUCUGA |
hsa-miR-32 | UAUUGCACAUUACUAAGUUGC | ||||
hsa-miR-92 | UAUUGCACUUGUCCCGGCCUG | ||||
hsa-miR-367 | AAUUGCACUUUAGCAAUGGUGA | ||||
hsa-miR-92bSZ | UAUUGCACUCGUCCCGGCCUC | ||||
miR-30-5p | 884 | 890 | 1A | hsa-miR-30a-5p | UGUAAACAUCCUCGACUGGAAG |
hsa-miR-30cbrain | UGUAAACAUCCUACACUCUCAGC | ||||
hsa-miR-30dSZ | UGUAAACAUCCCCGACUGGAAG | ||||
hsa-miR-30bSZ | UGUAAACAUCCUACACUCAGCU | ||||
hsa-miR-30e-5p | UGUAAACAUCCUUGACUGGA | ||||
miR-339 | 866 | 872 | 1A | hsa-miR-339 | UCCCUGUCCUCCAGGAGCUCA |
miR-369-3p | 1086 | 1092 | m8 | hsa-miR-369-3p | AAUAAUACAUGGUUGAUCUUU |
miR-455 | 1003 | 1009 | m8 | hsa-miR-455 | UAUGUGCCUUUGGACUACAUCG |
- SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
- Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.