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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for NUP205 |
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Phenotypic Information for NUP205(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: NUP205 |
Familial Cancer Database: NUP205 |
* 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/ |
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REACTOME_METABOLISM_OF_NON_CODING_RNA REACTOME_METABOLISM_OF_RNA REACTOME_METABOLISM_OF_CARBOHYDRATES |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: NUP205 |
MedGen: NUP205 (Human Medical Genetics with Condition) | |
ClinVar: NUP205 | |
Phenotype | MGI: 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. |
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- Statistics for Tissue and Mutation type | Top |
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- 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'. |
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Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | NUP205 | chr7 | 135260239 | 135260259 | AGBL3 | chr7 | 134716317 | 134716337 |
ovary | NUP205 | chr7 | 135306870 | 135306890 | NUP205 | chr7 | 135319443 | 135319463 |
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) |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows NUP205 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 |
CA313337 | NUP205 | 7 | 106 | 7 | 135333402 | 135333501 | NUP205 | 103 | 311 | 7 | 135333164 | 135333372 | |
BM453649 | NUP205 | 25 | 95 | 7 | 135330252 | 135330322 | NUP205 | 92 | 568 | 7 | 135330295 | 135333504 |
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Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 1 |   |   |   |   |   |   |   | 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) |
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Stat. for Non-Synonymous SNVs (# total SNVs=167) | (# total SNVs=54) |
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(# total SNVs=5) | (# total SNVs=1) |
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* 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 |
chr7:135279300-135279300 | p.E612E | 5 |
chr7:135307641-135307641 | p.R1483* | 4 |
chr7:135261103-135261103 | p.A143A | 4 |
chr7:135329690-135329690 | p.A1869A | 3 |
chr7:135301839-135301839 | p.V1178V | 3 |
chr7:135277855-135277855 | p.R582H | 3 |
chr7:135315097-135315097 | p.L1646L | 2 |
chr7:135279315-135279315 | p.A617A | 2 |
chr7:135258542-135258542 | p.G104G | 2 |
chr7:135282923-135282923 | p.R748C | 2 |
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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 | 3 | 4 |   | 32 | 3 |   | 6 | 1 | 6 | 1 |   | 20 | 9 | 6 | 2 |   | 15 | 16 |   | 19 |
# mutation | 5 | 4 |   | 32 | 3 |   | 6 | 1 | 6 | 1 |   | 28 | 10 | 6 | 2 |   | 16 | 21 |   | 27 |
nonsynonymous SNV | 2 | 4 |   | 23 | 3 |   | 6 | 1 | 4 | 1 |   | 21 | 8 | 5 | 2 |   | 13 | 12 |   | 23 |
synonymous SNV | 3 |   |   | 9 |   |   |   |   | 2 |   |   | 7 | 2 | 1 |   |   | 3 | 9 |   | 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]) |
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* 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 |
chr7:135310033 | p.A143A | 2 |
chr7:135301962 | p.A1328A | 2 |
chr7:135304191 | p.R1591C | 2 |
chr7:135261103 | p.K1219N | 2 |
chr7:135285706 | p.R582H | 2 |
chr7:135311087 | p.R1534H | 2 |
chr7:135323372 | p.V788A | 2 |
chr7:135277855 | p.A1778D | 2 |
chr7:135301844 | p.E1554K | 1 |
chr7:135304619 | p.A834V | 1 |
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* 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. |
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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 NUP205 |
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* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
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* 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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* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
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* 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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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 |
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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 |
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* 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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Pharmacological Information for NUP205 |
There's no related Drug. |
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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 |
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