|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for SLC2A3 |
Top |
Phenotypic Information for SLC2A3(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: SLC2A3 |
Familial Cancer Database: SLC2A3 |
* This gene is included in those cancer gene databases. |
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 REACTOME_METABOLISM_OF_CARBOHYDRATES |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: SLC2A3 |
MedGen: SLC2A3 (Human Medical Genetics with Condition) | |
ClinVar: SLC2A3 | |
Phenotype | MGI: SLC2A3 (International Mouse Phenotyping Consortium) |
PhenomicDB: SLC2A3 |
Mutations for SLC2A3 |
* 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 |
- Statistics for Tissue and Mutation type | Top |
- 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'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | SLC2A3 | chr12 | 8083755 | 8083775 | SLC2A3 | chr12 | 8085366 | 8085386 |
pancreas | SLC2A3 | chr12 | 8079005 | 8079025 | SLC2A3 | chr12 | 8079774 | 8079794 |
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) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows SLC2A3 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 |
DA576628 | IGFBP3 | 1 | 108 | 7 | 45960766 | 45960873 | SLC2A3 | 109 | 572 | 12 | 8075591 | 8083114 |
Other DBs for Structural Variants |
Top |
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 | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
GAIN (# sample) | 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 |
SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
|
Top |
Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=78) | (# total SNVs=15) |
(# total SNVs=1) | (# total SNVs=0) |
Top |
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 |
chr12:8074055-8074055 | p.E482G | 5 |
chr12:8083865-8083865 | p.I162I | 3 |
chr12:8083210-8083210 | p.S180Y | 3 |
chr12:8075422-8075422 | p.A423S | 3 |
chr12:8086492-8086492 | p.P8T | 3 |
chr12:8084024-8084024 | p.G109G | 3 |
chr12:8083244-8083244 | p.? | 3 |
chr12:8075518-8075518 | p.E391K | 2 |
chr12:8082408-8082408 | p.E245K | 2 |
chr12:8075602-8075602 | p.S363G | 2 |
Top |
SNV Counts per Each Loci in TCGA data |
|
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 | 4 | 4 | 1 | 16 | 1 |   | 5 | 1 | 5 |   |   | 9 | 7 | 4 |   |   | 10 | 8 |   | 7 |
# mutation | 4 | 4 | 2 | 11 | 1 |   | 5 | 1 | 5 |   |   | 9 | 7 | 4 |   |   | 10 | 8 |   | 7 |
nonsynonymous SNV | 3 | 3 | 2 | 8 | 1 |   | 2 |   | 5 |   |   | 8 | 6 | 2 |   |   | 7 | 6 |   | 5 |
synonymous SNV | 1 | 1 |   | 3 |   |   | 3 | 1 |   |   |   | 1 | 1 | 2 |   |   | 3 | 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]) |
Top |
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 |
chr12:8075422 | p.G109G | 3 |
chr12:8084024 | p.A423T | 3 |
chr12:8086492 | p.P8T | 3 |
chr12:8075602 | p.G132V | 2 |
chr12:8085688 | p.S55C | 2 |
chr12:8083956 | p.G179G | 2 |
chr12:8083212 | p.S363I | 2 |
chr12:8083102 | p.S363G | 2 |
chr12:8075601 | p.R216I | 2 |
chr12:8074185 | p.L334V | 1 |
Other DBs for Point Mutations |
Copy Number for SLC2A3 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 SLC2A3 |
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)) |
Top |
CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
Top |
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 |
ADAMTS1,CCL2,CH25H,CSRNP1,CYR61,DSE,ETS2, GEM,GPR183,HBEGF,IL6,ITPRIP,NR4A3,PIM1, PLK3,SLC2A3,SOCS3,SRGN,TNFAIP3,ZEB2,ZFP36 | ADAMTS1,ADAMTS4,C2CD4B,CCL2,CCRN4L,CDKN1A,ETS2, ICAM1,IL6,MYADM,NFIL3,NR4A3,PIM1,RNF122, SELE,SLC25A25,SLC2A14,SLC2A3,SOCS3,SOX7,TSC22D2 |
ADAMTS4,AGR2___C11orf96,ARSI,C5AR1,CERCAM,COL6A2,DLG4, INHBA,ITPRIP,LGALS1,LOXL3,MMP14,NLRP3,RGS16, SLC2A14,SLC2A3,SOCS3,SRGN,TNFAIP6,VIM,WISP1 | ADAMTS1,ADAMTS4,CEBPB,CSRNP1,EGR3,FOSB,GPR3, ITPRIP,NR4A1,NR4A2,NR4A3,PHLDA1,PLK3,RNF122, SERPINE1,SLC2A3,SOCS3,STC1,THBD,THBS1,ZFP36 |
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 |
Top |
Interacting Genes (from Pathway Commons) |
Top |
Pharmacological Information for SLC2A3 |
There's no related Drug. |
Top |
Cross referenced IDs for SLC2A3 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |