Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for NUP205
Basic gene info.Gene symbolNUP205
Gene namenucleoporin 205kDa
SynonymsC7orf14
CytomapUCSC genome browser: 7q33
Genomic locationchr7 :135242661-135333499
Type of geneprotein-coding
RefGenesNM_015135.2,
Ensembl idENSG00000155561
Description205 kDa nucleoporinnuclear pore complex protein Nup205nucleoporin Nup205
Modification date20141207
dbXrefs MIM : 614352
HGNC : HGNC
Ensembl : ENSG00000155561
HPRD : 17653
Vega : OTTHUMG00000155497
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_NUP205
BioGPS: 23165
Gene Expression Atlas: ENSG00000155561
The Human Protein Atlas: ENSG00000155561
PathwayNCI Pathway Interaction Database: NUP205
KEGG: NUP205
REACTOME: NUP205
ConsensusPathDB
Pathway Commons: NUP205
MetabolismMetaCyc: NUP205
HUMANCyc: NUP205
RegulationEnsembl's Regulation: ENSG00000155561
miRBase: chr7 :135,242,661-135,333,499
TargetScan: NM_015135
cisRED: ENSG00000155561
ContextiHOP: NUP205
cancer metabolism search in PubMed: NUP205
UCL Cancer Institute: NUP205
Assigned class in ccmGDBC

Top
Phenotypic Information for NUP205(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: NUP205
Familial Cancer Database: NUP205
* This gene is included in those cancer gene databases.

.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

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/

check002.gifMetabolic Pathway Description
REACTOME_METABOLISM_OF_NON_CODING_RNA
REACTOME_METABOLISM_OF_RNA
REACTOME_METABOLISM_OF_CARBOHYDRATES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: NUP205
MedGen: NUP205 (Human Medical Genetics with Condition)
ClinVar: NUP205
PhenotypeMGI: NUP205 (International Mouse Phenotyping Consortium)
PhenomicDB: NUP205

Mutations for NUP205
* 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram

- Statistics for Tissue and Mutation typeTop
- 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'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
ovaryNUP205chr7135260239135260259AGBL3chr7134716317134716337
ovaryNUP205chr7135306870135306890NUP205chr7135319443135319463
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)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows NUP205 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
CA313337NUP20571067135333402135333501NUP2051033117135333164135333372
BM453649NUP20525957135330252135330322NUP205925687135330295135333504

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

Top
check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample1       1    1   
GAIN (# sample)1       1    1   
LOSS (# sample)                 
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract)

Top
check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=5

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=167)
Stat. for Synonymous SNVs
(# total SNVs=54)
Stat. for Deletions
(# total SNVs=5)
Stat. for Insertions
(# total SNVs=1)

Top
check002.gifTop 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 positionMutation(aa)Unique sampleID count
chr7:135279300-135279300p.E612E5
chr7:135261103-135261103p.A143A4
chr7:135307641-135307641p.R1483*4
chr7:135277855-135277855p.R582H3
chr7:135329690-135329690p.A1869A3
chr7:135301839-135301839p.V1178V3
chr7:135269656-135269656p.M373I2
chr7:135300745-135300745p.R1131H2
chr7:135304191-135304191p.A1328A2
chr7:135311087-135311087p.R1591G2

Top
check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample34 323 6161 20962 1516 19
# mutation54 323 6161 281062 1621 27
nonsynonymous SNV24 233 6141 21852 1312 23
synonymous SNV3  9    2  721  39 4
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])

Top
check002.gifTop 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 PositionMutation(aa)Unique sampleID count
chr7:135285706p.R582H2
chr7:135311087p.R1534H2
chr7:135323372p.V788A2
chr7:135277855p.A1778D2
chr7:135310033p.A143A2
chr7:135301962p.A1328A2
chr7:135261103p.K1219N2
chr7:135304191p.R1591C2
chr7:135258457p.E1104E1
chr7:135307653p.Q80E1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy Number for NUP205 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]

Top
Gene Expression for NUP205

check002.gifGene 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.

check002.gifDifferential 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))
Top
check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


Top
Gene-Gene Network Information
check002.gifCo-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

: Open all plots for all cancer types

ASPM,CENPI,CKAP2L,CKAP5,CLSPN,DBF4,GAS2L3,
LUZP6,MSH2,NCAPG2,NUP155,NUP205,POLQ,PUS7,
RQCD1,STIL,TNPO3,TRRAP,UBE3C,XPO1,XRCC2
ADNP,ASCC3,PRRC2C,CHML,DHX33,DHX9,DIP2B,
GTF3C4,HCG18,MGA,NUP205,PHF6,POLA1,RFWD3,
RNMT,THOC2,NDC1,TUG1,UTP20,WRN,ZNF562

ANAPC1,BAZ1B,BRAF,KLHDC10,LUC7L2,METTL2B,NCAPD3,
NCAPG2,NOM1,NUP155,NUP205,PAXIP1,POLR1B,PUS7,
RBM28,RIF1,TMEM209,TNPO3,TTC26,XPO1,XRCC2
ANAPC1,BARD1,BMS1,CKAP5,HEATR1,ILF3,IPO9,
MCM3,MDC1,NUP188,NUP205,PFAS,POLA1,PRKDC,
R3HDM1,SUPT16H,TTLL5,TUBGCP3,UBAP2L,URB1,XPO7
check002.gifCo-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

: Open all plots for all cancer types

Top
check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

Top
Pharmacological Information for NUP205


There's no related Drug.
Top
Cross referenced IDs for NUP205
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section

: Open all cross reference information



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas