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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for SLC25A11 |
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Phenotypic Information for SLC25A11(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: SLC25A11 |
Familial Cancer Database: SLC25A11 |
* 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_CARBOHYDRATES REACTOME_GLUCOSE_METABOLISM |
Mutations for SLC25A11 |
* 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 |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows SLC25A11 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 |
AI480110 | SLC25A11 | 27 | 77 | 17 | 4840599 | 4840655 | KLHL3 | 60 | 198 | 5 | 136953559 | 136953701 |
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=17) | (# total SNVs=6) |
(# total SNVs=0) | (# 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 |
chr17:4841830-4841830 | p.E175Q | 2 |
chr17:4842250-4842250 | p.R90H | 2 |
chr17:4842372-4842372 | p.L77L | 2 |
chr17:4841063-4841063 | p.A306A | 2 |
chr17:4841459-4841459 | p.A243T | 2 |
chr17:4841131-4841131 | p.P284S | 2 |
chr17:4842204-4842204 | p.L105L | 1 |
chr17:4841169-4841169 | p.R271H | 1 |
chr17:4841188-4841188 | p.V265M | 1 |
chr17:4841833-4841833 | p.E174Q | 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 | 2 | 2 |   | 1 | 1 |   | 1 |   |   |   | 1 | 4 | 2 |   |   |   | 4 | 2 |   | 5 |
# mutation | 2 | 2 |   | 1 | 1 |   | 1 |   |   |   | 1 | 5 | 2 |   |   |   | 4 | 2 |   | 5 |
nonsynonymous SNV | 1 | 1 |   | 1 | 1 |   |   |   |   |   |   | 4 | 1 |   |   |   | 2 |   |   | 3 |
synonymous SNV | 1 | 1 |   |   |   |   | 1 |   |   |   | 1 | 1 | 1 |   |   |   | 2 | 2 |   | 2 |
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 |
chr17:4842372 | p.L66L,SLC25A11 | 2 |
chr17:4841336 | p.S152Y,SLC25A11 | 1 |
chr17:4842201 | p.L148L,SLC25A11 | 1 |
chr17:4841351 | p.E124Q,SLC25A11 | 1 |
chr17:4842250 | p.R119R,SLC25A11 | 1 |
chr17:4841656 | p.L117R,SLC25A11 | 1 |
chr17:4842264 | p.P88P,SLC25A11 | 1 |
chr17:4841663 | p.A255T,SLC25A11 | 1 |
chr17:4841065 | p.P65S,SLC25A11 | 1 |
chr17:4841674 | p.P233T,SLC25A11 | 1 |
Other DBs for Point Mutations |
Copy Number for SLC25A11 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 SLC25A11 |
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 |
C17orf59,ELP5,CTDNEP1,GPS2,NAA38,MED11,OVCA2, PELP1,PFN1,PSMB6,RANGRF,RNASEK,RNF167,RNMTL1, RPAIN,SAT2,SLC25A11,SPAG7,EMC6,TRAPPC1,WRAP53 | AK1,ALDOA,COQ9,CTDNEP1,DYRK1B,ENDOG,MACROD1, MDH2,LINC00116,NDUFB10,NDUFS2,NDUFS3,NDUFS7,RAD23A, SIRT2,SLC25A11,TPI1,TRPT1,UBAC1,UQCR10,UQCRC1 | ||||
ATPAF2,ELP5,C1QBP,COPS3,EIF4A1,EIF5A,EIF5AL1, ELAC2,NAA38,MED11,MPDU1,OVCA2,PFN1,PSMB6, RNF167,RNMTL1,SLC25A11,TIMM22,EMC6,WRAP53,YWHAE | C19orf70,CYC1,DCTPP1,FLAD1,ICT1,MRPL57,MRPL15, MRPL27,MRPS12,MRPS16,MRPS7,SF3B5,SLC25A11,STOML2, PAM16,TMEM223,TOMM22,TRUB2,TXN2,UBAC1,ZNF576 |
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 SLC25A11 |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00121 | solute carrier family 25 (mitochondrial carrier; oxoglutarate carrier), member 11 | approved; nutraceutical | Biotin |
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Cross referenced IDs for SLC25A11 |
* 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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