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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for NUP37 |
Basic gene info. | Gene symbol | NUP37 |
Gene name | nucleoporin 37kDa | |
Synonyms | p37 | |
Cytomap | UCSC genome browser: 12q23.2 | |
Genomic location | chr12 :102467972-102512361 | |
Type of gene | protein-coding | |
RefGenes | NM_024057.2, | |
Ensembl id | ENSG00000075188 | |
Description | nucleoporin Nup37nup107-160 subcomplex subunit Nup37 | |
Modification date | 20141207 | |
dbXrefs | MIM : 609264 | |
HGNC : HGNC | ||
Ensembl : ENSG00000075188 | ||
HPRD : 14853 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_NUP37 | |
BioGPS: 79023 | ||
Gene Expression Atlas: ENSG00000075188 | ||
The Human Protein Atlas: ENSG00000075188 | ||
Pathway | NCI Pathway Interaction Database: NUP37 | |
KEGG: NUP37 | ||
REACTOME: NUP37 | ||
ConsensusPathDB | ||
Pathway Commons: NUP37 | ||
Metabolism | MetaCyc: NUP37 | |
HUMANCyc: NUP37 | ||
Regulation | Ensembl's Regulation: ENSG00000075188 | |
miRBase: chr12 :102,467,972-102,512,361 | ||
TargetScan: NM_024057 | ||
cisRED: ENSG00000075188 | ||
Context | iHOP: NUP37 | |
cancer metabolism search in PubMed: NUP37 | ||
UCL Cancer Institute: NUP37 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for NUP37(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: NUP37 |
Familial Cancer Database: NUP37 |
* This gene is included in those cancer gene databases. |
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Oncogene 1 | Significant driver gene in |
cf) number; DB name 1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/, 3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html, 4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php, 1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
Metabolic Pathway Description | |
REACTOME_METABOLISM_OF_NON_CODING_RNA REACTOME_METABOLISM_OF_RNA REACTOME_METABOLISM_OF_CARBOHYDRATES |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: NUP37 |
MedGen: NUP37 (Human Medical Genetics with Condition) | |
ClinVar: NUP37 | |
Phenotype | MGI: NUP37 (International Mouse Phenotyping Consortium) |
PhenomicDB: NUP37 |
Mutations for NUP37 |
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
- Statistics for Tissue and Mutation type | Top |
- For Inter-chromosomal Variations |
There's no inter-chromosomal structural variation. |
- For Intra-chromosomal Variations |
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | NUP37 | chr12 | 102491528 | 102491548 | NUP37 | chr12 | 102491596 | 102491616 |
ovary | NUP37 | chr12 | 102495533 | 102495553 | NUP37 | chr12 | 102496394 | 102496414 |
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows NUP37 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=21) | (# total SNVs=4) |
(# total SNVs=2) | (# total SNVs=0) |
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Top 10 SNVs Having the Most Samples in COSMIC data |
* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID. |
GRCh37 position | Mutation(aa) | Unique sampleID count |
chr12:102471182-102471182 | p.A214T | 2 |
chr12:102505967-102505967 | p.R67L | 1 |
chr12:102468805-102468805 | p.Q281K | 1 |
chr12:102471194-102471194 | p.P210S | 1 |
chr12:102505968-102505968 | p.R67* | 1 |
chr12:102468857-102468857 | p.S263R | 1 |
chr12:102471196-102471196 | p.V209G | 1 |
chr12:102512147-102512147 | p.T50T | 1 |
chr12:102470594-102470594 | p.D252H | 1 |
chr12:102471230-102471230 | p.Q198* | 1 |
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SNV Counts per Each Loci in TCGA data |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   |   |   | 5 |   |   | 4 |   |   |   |   | 2 | 7 | 1 |   | 1 | 4 | 3 |   | 3 |
# mutation |   |   |   | 4 |   |   | 4 |   |   |   |   | 2 | 7 | 1 |   | 1 | 4 | 3 |   | 3 |
nonsynonymous SNV |   |   |   | 2 |   |   | 2 |   |   |   |   | 1 | 7 | 1 |   | 1 | 3 | 3 |   | 2 |
synonymous SNV |   |   |   | 2 |   |   | 2 |   |   |   |   | 1 |   |   |   |   | 1 |   |   | 1 |
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma]) |
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Top 10 SNVs Having the Most Samples in TCGA data |
* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID. |
Genomic Position | Mutation(aa) | Unique sampleID count |
chr12:102494810 | p.K118N | 2 |
chr12:102471261 | p.I237I | 1 |
chr12:102512173 | p.E59K | 1 |
chr12:102470594 | p.A226A | 1 |
chr12:102479585 | p.T50T | 1 |
chr12:102512209 | p.C217F | 1 |
chr12:102471111 | p.Y43Y | 1 |
chr12:102492898 | p.P210T | 1 |
chr12:102512251 | p.N42N | 1 |
chr12:102471144 | p.V209G | 1 |
Other DBs for Point Mutations |
Copy Number for NUP37 in TCGA |
* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene. |
cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma] |
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Gene Expression for NUP37 |
Gene Expression in Cancer Cell-lines (CCLE) |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
Differential Gene Expression in Primary Tumors (TCGA) |
* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis. (t test, adjusted p<0.05 (using Benjamini-Hochberg FDR)) |
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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-Expressed gene's network Plot |
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
ACTR6,ANAPC7,PARPBP,CCDC59,CCNB1,DENR,METAP2, MRPL42,NDUFA12,NUP37,OIP5,PPP1CC,PWP1,RAN, RFC5,SLC25A3,TDG,TMPO,UNG,VPS29,VRK1 | CBX3,COX16,DUSP11,FAM103A1,HPRT1,LSM5,LAMTOR3, MED31,NUP37,PIGY,C7orf73,PPA2,RBM22,TRMT10C, RSL24D1,RWDD4,SEP15,SNRPE,TPRKB,UBE2E1,VAPA |
C12orf29,PARPBP,CCDC59,CCT2,CDK4,GPN3,HNRNPC, MAGOHB,METAP2,MRPL42,NDUFA12,NUP37,PTGES3,PWP1, RAN,SRSF3,SRSF7,SNRPF,UBE2N,VPS29,YEATS4 | BOLA3,C1QBP,CDC123,CKS1B,DCAF13,DTYMK,HSPE1, MRPL3,MRPS22,NUP37,POP5,PPIH,PRDX4,RAN, RPL26L1,SLBP,SNRNP40,SNRPD1,TAF9,TOMM5,UTP6 |
Co-Expressed gene's Protein-protein interaction Network Plot |
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for NUP37 |
There's no related Drug. |
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Cross referenced IDs for NUP37 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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