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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for SLC25A16 |
Basic gene info. | Gene symbol | SLC25A16 |
Gene name | solute carrier family 25 (mitochondrial carrier), member 16 | |
Synonyms | D10S105E|GDA|GDC|HGT.1|ML7|hML7 | |
Cytomap | UCSC genome browser: 10q21.3 | |
Genomic location | chr10 :70242089-70287280 | |
Type of gene | protein-coding | |
RefGenes | NM_152707.3, | |
Ensembl id | ENSG00000122912 | |
Description | graves disease autoantigengraves disease carrier proteinmitochondrial solute carrier protein homologsolute carrier family 25 (mitochondrial carrier; Graves disease autoantigen), member 16solute carrier family 25 member 16 | |
Modification date | 20141207 | |
dbXrefs | MIM : 139080 | |
HGNC : HGNC | ||
HPRD : 00740 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_SLC25A16 | |
BioGPS: 8034 | ||
Gene Expression Atlas: ENSG00000122912 | ||
The Human Protein Atlas: ENSG00000122912 | ||
Pathway | NCI Pathway Interaction Database: SLC25A16 | |
KEGG: SLC25A16 | ||
REACTOME: SLC25A16 | ||
ConsensusPathDB | ||
Pathway Commons: SLC25A16 | ||
Metabolism | MetaCyc: SLC25A16 | |
HUMANCyc: SLC25A16 | ||
Regulation | Ensembl's Regulation: ENSG00000122912 | |
miRBase: chr10 :70,242,089-70,287,280 | ||
TargetScan: NM_152707 | ||
cisRED: ENSG00000122912 | ||
Context | iHOP: SLC25A16 | |
cancer metabolism search in PubMed: SLC25A16 | ||
UCL Cancer Institute: SLC25A16 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for SLC25A16(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: SLC25A16 |
Familial Cancer Database: SLC25A16 |
* 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_VITAMINS_AND_COFACTORS |
Mutations for SLC25A16 |
* 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 SLC25A16 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 |
Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 2 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
GAIN (# sample) | 2 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
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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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=14) | (# total SNVs=1) |
(# 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 |
chr10:70243299-70243299 | p.R297* | 2 |
chr10:70263436-70263436 | p.L125P | 1 |
chr10:70248290-70248290 | p.L236S | 1 |
chr10:70263442-70263442 | p.T123M | 1 |
chr10:70248302-70248302 | p.N232S | 1 |
chr10:70276500-70276500 | p.? | 1 |
chr10:70248311-70248311 | p.S229L | 1 |
chr10:70276520-70276520 | p.Y71H | 1 |
chr10:70243213-70243213 | p.M325I | 1 |
chr10:70248341-70248341 | p.S219F | 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 | 1 |   |   | 1 |   |   | 1 |   |   |   |   | 2 | 1 |   |   |   | 3 | 2 |   | 1 |
# mutation | 1 |   |   | 1 |   |   | 1 |   |   |   |   | 2 | 1 |   |   |   | 3 | 2 |   | 1 |
nonsynonymous SNV | 1 |   |   | 1 |   |   | 1 |   |   |   |   | 2 | 1 |   |   |   | 3 | 1 |   | 1 |
synonymous SNV |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | 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 |
chr10:70253288 | p.L125P | 1 |
chr10:70263427 | p.T123K | 1 |
chr10:70263436 | p.H67Y | 1 |
chr10:70243337 | p.R284L | 1 |
chr10:70263442 | p.R266Q | 1 |
chr10:70246946 | p.S258F | 1 |
chr10:70276532 | p.A254A | 1 |
chr10:70248224 | p.V242V | 1 |
chr10:70248235 | p.S229L | 1 |
chr10:70248271 | p.S219F | 1 |
Other DBs for Point Mutations |
Copy Number for SLC25A16 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 SLC25A16 |
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 |
CCDC176,C6orf120,CCDC125,CCDC160,CREB3L1,CSAD,DTWD2, FOXP1,GPR160,IQGAP2,MON2,PBLD,PDXDC1,PRPF39, RUFY2,SH2D4A,SLC25A16,SLC35F5,SLC44A4,ZNF138,ZNF737 | ACER3,ACO1,ACOX1,CLMP,ASPH,PQLC2L,CAV2, COL4A3BP,DDHD2,DMGDH,EBF1,FERMT2,MDFIC,MMD, PCYOX1,PRKAR2B,PTGER3,RTN3,SLC25A16,TMEM135,TSPAN3 | ||||
ANAPC16,ARV1,ATP5C1,MPC2,PRADC1,TRAPPC13,CAAP1, HIGD1A,LRRC19,MED7,MTHFD2L,NDUFB5,OXNAD1,SAR1B, SELT,SLC25A16,SRP9,TIAL1,TRUB1,VPS26A,ZDHHC6 | AIMP2,AK2,ATP5C1,MPC1,C14orf142,CCNC,CD58, CELA3A,COMMD8,COX11,COX7B,DRD5,DUSP21,IAPP, LACTB2,LYPLA1,SAR1B,SLC14A2,SLC25A16,SLC25A46,SLC37A2 |
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 SLC25A16 |
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 |
DB00151 | solute carrier family 25 (mitochondrial carrier; Graves disease autoantigen), member 16 | approved; nutraceutical | L-Cysteine |
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Cross referenced IDs for SLC25A16 |
* 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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