Gene Page:NOTCH2

Summary?
GeneID 4853
Symbol NOTCH2
Synonyms AGS2|HJCYS|hN2
Description notch 2
Reference MIM:600275|HGNC:HGNC:7882|运用:ENSG00000134250|HPRD:02606|Vega:OTTHUMG00000012177
Gene type protein-coding
地图上的位置 1p13-p11
Pascal p-value 0.798
Fetal beta 0.944
eGene Myers' cis & trans

Gene in Data Sources
Gene set name 方法创e set Description Info
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: 0.0235
GSMA_IIA Genome scan meta-analysis (All samples) Psr: 0.00814
Expression Meta-analysis of gene expression Pvalue: 1.399
Literature High-throughput literature-search Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias Click to show details
GO_Annotation Mapping neuro-related keywords to Gene Ontology annotations Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs9876344 chr3 77305890 NOTCH2 4853 0.2 trans
rs10842689 chr12 26338364 NOTCH2 4853 0.2 trans
rs695809 chr22 26278127 NOTCH2 4853 0.15 trans

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
Gene Pearson's Correlation Spearman's Correlation
MFSD4 0.92 0.78
CREG2 0.91 0.69
CAMKK1 0.90 0.89
MAST3 0.90 0.82
SV2B 0.90 0.81
IQSEC1 0.89 0.84
SYN1 0.89 0.84
KIAA1217 0.88 0.91
IQSEC2 0.88 0.89
PI4KA 0.88 0.81
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
BCL7C -0.47 -0.53
GTF3C6 -0.44 -0.36
C9orf46 -0.44 -0.39
C21orf57 -0.44 -0.44
FAM36A -0.43 -0.29
HEBP2 -0.41 -0.50
EXOSC8 -0.40 -0.25
AC006276.2 -0.40 -0.32
RPL23A -0.39 -0.38
FADS2 -0.39 -0.25

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0004872 receptor activity NAS 9244302
GO:0003706 ligand-regulated transcription factor activity TAS 9244302
GO:0005509 calcium ion binding IEA -
GO:0005515 protein binding NAS 12531696
GO:0046982 protein heterodimerization activity NAS 9244302
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0007399 nervous system development NAS neurite (GO term level: 5) 12760378
GO:0001709 cell fate determination TAS 9244302
GO:0006355 regulation of transcription, DNA-dependent TAS 9244302
GO:0006350 transcription IEA -
GO:0016049 cell growth IDA 11306509
GO:0007219 Notch signaling pathway IEA -
GO:0006917 induction of apoptosis TAS 12531696
GO:0009887 organ morphogenesis IEP 12531696
GO:0007050 cell cycle arrest IDA 11306509
GO:0019827 stem cell maintenance TAS 11306509
GO:0008285 negative regulation of cell proliferation IDA 11306509
GO:0006916 anti-apoptosis TAS 12531696
GO:0007275 multicellular organismal development NAS 9244302
GO:0030154 cell differentiation IEA -
GO:0050793 regulation of developmental process IEA -
GO:0030097 hemopoiesis TAS 1303260
GO:0046579 positive regulation of Ras protein signal transduction IDA 11306509
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005634 nucleus IDA 1303260
GO:0009986 cell surface IDA 9244302
GO:0005886 plasma membrane IEA -
GO:0005887 integral to plasma membrane IDA 9244302

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG DORSO VENTRAL AXIS FORMATION 25 21 All SZGR 2.0 genes in this pathway
KEGG NOTCH SIGNALING PATHWAY 47 35 All SZGR 2.0 genes in this pathway
PID NOTCH PATHWAY 59 49 All SZGR 2.0 genes in this pathway
REACTOME PRE NOTCH TRANSCRIPTION AND TRANSLATION 29 17 All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY NOTCH2 12 10 All SZGR 2.0 genes in this pathway
REACTOME PRE NOTCH EXPRESSION AND PROCESSING 44 24 All SZGR 2.0 genes in this pathway
REACTOME PRE NOTCH PROCESSING IN GOLGI 16 10 All SZGR 2.0 genes in this pathway
REACTOME GENERIC TRANSCRIPTION PATHWAY 352 181 All SZGR 2.0 genes in this pathway
REACTOME NOTCH HLH TRANSCRIPTION PATHWAY 13 8 All SZGR 2.0 genes in this pathway
REACTOME RECEPTOR LIGAND BINDING INITIATES THE SECOND PROTEOLYTIC CLEAVAGE OF NOTCH RECEPTOR 12 8 All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY NOTCH 103 64 All SZGR 2.0 genes in this pathway
HOLLMANN APOPTOSIS VIA CD40 DN 267 178 All SZGR 2.0 genes in this pathway
GAZDA DIAMOND BLACKFAN ANEMIA ERYTHROID DN 493 298 All SZGR 2.0 genes in this pathway
FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS DN 463 290 All SZGR 2.0 genes in this pathway
THUM SYSTOLIC HEART FAILURE UP 423 283 All SZGR 2.0 genes in this pathway
RHEIN ALL GLUCOCORTICOID THERAPY UP 78 41 All SZGR 2.0 genes in this pathway
PROVENZANI METASTASIS DN 136 94 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
BENPORATH SUZ12 TARGETS 1038 678 All SZGR 2.0 genes in this pathway
SHEPARD BMYB MORPHOLINO DN 200 112 All SZGR 2.0 genes in this pathway
SHEPARD BMYB TARGETS 74 41 All SZGR 2.0 genes in this pathway
SHEPARD CRUSH AND BURN MUTANT DN 185 111 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN 298 200 All SZGR 2.0 genes in this pathway
VERRECCHIA RESPONSE TO TGFB1 C1 19 15 All SZGR 2.0 genes in this pathway
VERRECCHIA EARLY RESPONSE TO TGFB1 58 43 All SZGR 2.0 genes in this pathway
VERRECCHIA DELAYED RESPONSE TO TGFB1 39 26 All SZGR 2.0 genes in this pathway
MOREIRA RESPONSE TO TSA DN 18 16 All SZGR 2.0 genes in this pathway
VERRECCHIA RESPONSE TO TGFB1 C4 13 10 All SZGR 2.0 genes in this pathway
LEIN CHOROID PLEXUS MARKERS 103 61 All SZGR 2.0 genes in this pathway
MITSIADES RESPONSE TO APLIDIN DN 249 165 All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP 260 174 All SZGR 2.0 genes in this pathway
BREDEMEYER RAG SIGNALING NOT VIA ATM UP 62 29 All SZGR 2.0 genes in this pathway
VART KSHV INFECTION ANGIOGENIC MARKERS UP 165 118 All SZGR 2.0 genes in this pathway
VART KSHV INFECTION ANGIOGENIC MARKERS DN 138 92 All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO CSF2RB AND IL4 DN 315 201 All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF DN 235 144 All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF VS CSF2RB AND IL4 UP 408 276 All SZGR 2.0 genes in this pathway
BRUNEAU HEART GREAT VESSELS AND VALVULOGENESIS 8 8 All SZGR 2.0 genes in this pathway
WOO LIVER CANCER RECURRENCE UP 105 75 All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS CONFLUENT 567 365 All SZGR 2.0 genes in this pathway
FUKUSHIMA TNFSF11 TARGETS 16 14 All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN 1972 1213 All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 UP 430 288 All SZGR 2.0 genes in this pathway
DUAN PRDM5 TARGETS 79 52 All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS DN 553 343 All SZGR 2.0 genes in this pathway
KOINUMA TARGETS OF SMAD2 OR SMAD3 824 528 All SZGR 2.0 genes in this pathway
SERVITJA ISLET HNF1A TARGETS UP 163 111 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-23 2415 2422 1A,m8 hsa-miR-23abrain AUCACAUUGCCAGGGAUUUCC
hsa-miR-23bbrain AUCACAUUGCCAGGGAUUACC
miR-34/449 2466 2472 m8 hsa-miR-34abrain UGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34c AGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449 UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449b AGGCAGUGUAUUGUUAGCUGGC
miR-409-5p 3100 3106 1A hsa-miR-409-5p AGGUUACCCGAGCAACUUUGCA
miR-485-3p 3085 3091 m8 hsa-miR-485-3p GUCAUACACGGCUCUCCUCUCU
miR-9 2907 2913 m8 hsa-miR-9SZ UCUUUGGUUAUCUAGCUGUAUGA