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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for UGCG |
Basic gene info. | Gene symbol | UGCG |
Gene name | UDP-glucose ceramide glucosyltransferase | |
Synonyms | GCS|GLCT1 | |
Cytomap | UCSC genome browser: 9q31 | |
Genomic location | chr9 :114659205-114695433 | |
Type of gene | protein-coding | |
RefGenes | NM_003358.2, | |
Ensembl id | ENSG00000148154 | |
Description | UDP-glucose:N-acylsphingosine D-glucosyltransferaseceramide glucosyltransferaseglucosylceramide synthase | |
Modification date | 20141217 | |
dbXrefs | MIM : 602874 | |
HGNC : HGNC | ||
HPRD : 04190 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_UGCG | |
BioGPS: 7357 | ||
Gene Expression Atlas: ENSG00000148154 | ||
The Human Protein Atlas: ENSG00000148154 | ||
Pathway | NCI Pathway Interaction Database: UGCG | |
KEGG: UGCG | ||
REACTOME: UGCG | ||
ConsensusPathDB | ||
Pathway Commons: UGCG | ||
Metabolism | MetaCyc: UGCG | |
HUMANCyc: UGCG | ||
Regulation | Ensembl's Regulation: ENSG00000148154 | |
miRBase: chr9 :114,659,205-114,695,433 | ||
TargetScan: NM_003358 | ||
cisRED: ENSG00000148154 | ||
Context | iHOP: UGCG | |
cancer metabolism search in PubMed: UGCG | ||
UCL Cancer Institute: UGCG | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for UGCG(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: UGCG |
Familial Cancer Database: UGCG |
* 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 | |
KEGG_SPHINGOLIPID_METABOLISM REACTOME_GLYCOSPHINGOLIPID_METABOLISM REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_SPHINGOLIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: UGCG |
MedGen: UGCG (Human Medical Genetics with Condition) | |
ClinVar: UGCG | |
Phenotype | MGI: UGCG (International Mouse Phenotyping Consortium) |
PhenomicDB: UGCG |
Mutations for UGCG |
* 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 |
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'. |
- 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 | UGCG | chr9 | 114666422 | 114666442 | PITPNC1 | chr17 | 65601784 | 65601804 |
ovary | UGCG | chr9 | 114666903 | 114666923 | UGCG | chr9 | 114670920 | 114670940 |
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 UGCG 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 |
BE185694 | UGCG | 22 | 127 | 9 | 114672701 | 114672806 | UGCG | 123 | 256 | 9 | 114672833 | 114672966 |
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=21) | (# total SNVs=6) |
(# total SNVs=4) | (# 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 |
chr9:114695180-114695180 | p.L365fs*9 | 3 |
chr9:114676927-114676927 | p.Y47Y | 2 |
chr9:114688706-114688706 | p.E163G | 2 |
chr9:114694486-114694486 | p.T287T | 2 |
chr9:114691946-114691946 | p.A242V | 2 |
chr9:114695107-114695107 | p.G339C | 1 |
chr9:114687105-114687105 | p.G131V | 1 |
chr9:114691947-114691947 | p.A242A | 1 |
chr9:114695129-114695129 | p.K346R | 1 |
chr9:114687128-114687128 | p.L139I | 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 |   |   | 5 |   |   | 2 |   |   |   | 1 |   | 1 | 1 |   |   | 2 | 2 |   | 5 |
# mutation | 1 |   |   | 5 |   |   | 2 |   |   |   | 1 |   | 1 | 1 |   |   | 2 | 3 |   | 5 |
nonsynonymous SNV | 1 |   |   | 3 |   |   | 1 |   |   |   |   |   | 1 |   |   |   | 2 | 3 |   | 5 |
synonymous SNV |   |   |   | 2 |   |   | 1 |   |   |   | 1 |   |   | 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 |
chr9:114688773 | p.V256A | 1 |
chr9:114695192 | p.S267F | 1 |
chr9:114691815 | p.H308H | 1 |
chr9:114695230 | p.F27V | 1 |
chr9:114659574 | p.D348H | 1 |
chr9:114691868 | p.Y47Y | 1 |
chr9:114695273 | p.Y349H | 1 |
chr9:114676927 | p.L50L | 1 |
chr9:114691946 | p.F73L | 1 |
chr9:114676936 | p.A352V | 1 |
Other DBs for Point Mutations |
Copy Number for UGCG 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 UGCG |
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 |
AFF3,BTBD8,CREBRF,CPEB4,CSNK1G3,FAM73A,FNIP1, KIAA1107,KIAA1109,KLHL11,LRBA,MED13L,MKL2,PRLR, RASEF,SYTL4,TBC1D9,THSD4,TRPS1,UGCG,WDR19 | ABL2,AFF4,ARL5B,FAM208B,SPRTN,SDE2,CHD1, CSRNP2,DDX3X,EAF1,HIF1A,MTF1,REL,RLIM, RNF19A,SKIL,SMARCA5,SPTY2D1,UGCG,ZNF281,ZBTB21 |
C10orf54,DNAJB4,ETS1,EVI2B,FAM49A,FAM63B,IL6ST, ITGAV,LHFPL2,LRRC8C,MYO5A,NRP1,PTAFR,RAB8B, SAMSN1,SNRK,SRGN,STK17B,TCP11L2,TMEM140,UGCG | ADIPOR2,AP1AR,CEBPG,CLRN3,CXADR,ERBB2IP,GCOM1, KALRN,KIAA0247,LNX2,MAP3K2,MAPK6,MPP5,SLC51B, PRR13,RIOK3,SLC2A13,TMEM135,TUBAL3,UGCG,ZDHHC21 |
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 UGCG |
There's no related Drug. |
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Cross referenced IDs for UGCG |
* 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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