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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for SLC25A17 |
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Phenotypic Information for SLC25A17(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: SLC25A17 |
Familial Cancer Database: SLC25A17 |
* 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_PEROXISOMAL_LIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
Mutations for SLC25A17 |
* 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 |
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'. |
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- For Intra-chromosomal Variations |
There's no intra-chromosomal structural variation. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
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 SLC25A17 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 |
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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=14) | (# total SNVs=7) |
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(# total SNVs=4) | (# total SNVs=0) |
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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 |
chr22:41195058-41195058 | p.L30fs*42 | 4 |
chr22:41188666-41188666 | p.R66Q | 2 |
chr22:41175053-41175053 | p.R137S | 2 |
chr22:41190554-41190554 | p.H49L | 2 |
chr22:41173234-41173234 | p.K199E | 2 |
chr22:41175136-41175136 | p.? | 1 |
chr22:41195056-41195056 | p.P29L | 1 |
chr22:41173244-41173244 | p.K195N | 1 |
chr22:41188568-41188568 | p.S99P | 1 |
chr22:41195056-41195057 | p.P29F | 1 |
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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 |   |   | 1 |   |   |   |   |   | 2 |   |   |   | 5 | 1 |   | 3 |
# mutation |   |   |   | 6 |   |   | 1 |   |   |   |   |   | 2 |   |   |   | 5 | 1 |   | 3 |
nonsynonymous SNV |   |   |   | 4 |   |   |   |   |   |   |   |   |   |   |   |   | 4 | 1 |   | 3 |
synonymous SNV |   |   |   | 2 |   |   | 1 |   |   |   |   |   | 2 |   |   |   | 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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* 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 |
chr22:41188666 | p.R66Q,SLC25A17 | 2 |
chr22:41215249 | p.R85C,SLC25A17 | 1 |
chr22:41173355 | p.K57R,SLC25A17 | 1 |
chr22:41173356 | p.T47T,SLC25A17 | 1 |
chr22:41173357 | p.V81V,SLC25A17 | 1 |
chr22:41175075 | p.F80V,SLC25A17 | 1 |
chr22:41175104 | p.P29H,SLC25A17 | 1 |
chr22:41173075 | p.T22T,SLC25A17 | 1 |
chr22:41188620 | p.A2T,SLC25A17 | 1 |
chr22:41173096 | p.Y148C,SLC25A17 | 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 SLC25A17 |
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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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ACO2,ATXN10,BCL2L13,DRG1,ST13P4,FOXRED2,L3MBTL2, MRPL40,NDUFA6,NHP2L1,NUP50,PHF5A,RNF185,SAMM50, SLC25A17,SNAP29,ST13,SYNGR1,TOMM22,XPNPEP3,XRCC6 | AGA,BUB3,C14orf1,TMEM241,C3orf14,CYP2R1,CYP51A1, HSD17B7,HSPB11,MYCBP,PEX3,PIP4K2C,PPA2,PPAPDC2, PTPLAD1,RNF103,SERP1,SLC25A17,TMEM33,SARAF,TMEM87B |
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ADSL,BID,CDC45,CENPM,DGCR6L,DRG1,MRPL40, NDUFA6,NHP2L1,PHF5A,POLR2F,RANBP1,RBX1,SLC25A17, SNRPD3,TOMM22,TXN2,UBE2L3,UFD1L,UQCR10,XRCC6 | DTD2,CMC2,TEFM,CCDC58,CHAC2,COX18,DCAF13, HSPA14,MEMO1,MRPL1,MRPL42,MRPS35,PTRH2,TRMT10C, RINT1,SLC25A17,SRPRB,TAF9,TOMM22,UTP18,WDR12 |
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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 SLC25A17 |
There's no related Drug. |
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Cross referenced IDs for SLC25A17 |
* 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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