|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for B4GALT6 |
Basic gene info. | Gene symbol | B4GALT6 |
Gene name | UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 6 | |
Synonyms | B4Gal-T6|beta4Gal-T6 | |
Cytomap | UCSC genome browser: 18q11 | |
Genomic location | chr18 :29202208-29264686 | |
Type of gene | protein-coding | |
RefGenes | NM_004775.3, | |
Ensembl id | ENSG00000118276 | |
Description | UDP-Gal:beta-GlcNAc beta-1,4-galactosyltransferase 6UDP-Gal:glucosylceramide beta-1,4-galactosyltransferaseUDP-galactose:beta-N-acetylglucosamine beta-1,4-galactosyltransferase 6beta-1,4-GalTase 6beta-1,4-galactosyltransferase 6beta4GalT-VI | |
Modification date | 20141207 | |
dbXrefs | MIM : 604017 | |
HGNC : HGNC | ||
Ensembl : ENSG00000118276 | ||
HPRD : 06808 | ||
Vega : OTTHUMG00000131980 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_B4GALT6 | |
BioGPS: 9331 | ||
Gene Expression Atlas: ENSG00000118276 | ||
The Human Protein Atlas: ENSG00000118276 | ||
Pathway | NCI Pathway Interaction Database: B4GALT6 | |
KEGG: B4GALT6 | ||
REACTOME: B4GALT6 | ||
ConsensusPathDB | ||
Pathway Commons: B4GALT6 | ||
Metabolism | MetaCyc: B4GALT6 | |
HUMANCyc: B4GALT6 | ||
Regulation | Ensembl's Regulation: ENSG00000118276 | |
miRBase: chr18 :29,202,208-29,264,686 | ||
TargetScan: NM_004775 | ||
cisRED: ENSG00000118276 | ||
Context | iHOP: B4GALT6 | |
cancer metabolism search in PubMed: B4GALT6 | ||
UCL Cancer Institute: B4GALT6 | ||
Assigned class in ccmGDB | C |
Top |
Phenotypic Information for B4GALT6(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: B4GALT6 |
Familial Cancer Database: B4GALT6 |
* 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_METABOLISM_OF_PROTEINS REACTOME_METABOLISM_OF_CARBOHYDRATES |
Mutations for B4GALT6 |
* 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 | B4GALT6 | chr18 | 29254262 | 29254282 | chr18 | 29298617 | 29298637 | |
pancreas | B4GALT6 | chr18 | 29228602 | 29228622 | B4GALT6 | chr18 | 29229662 | 29229682 |
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 B4GALT6 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 |
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 |   |   |   | 3 |   |   |   | 1 |   |   | |||
GAIN (# sample) |   |   |   |   |   |   |   |   |   |   | 2 |   |   |   | 1 |   |   | |||
LOSS (# sample) |   |   |   |   |   |   | 1 |   |   |   | 1 |   |   |   |   |   |   |
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=40) | (# total SNVs=9) |
(# total SNVs=2) | (# 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 |
chr18:29218688-29218688 | p.E169D | 3 |
chr18:29210958-29210958 | p.R247H | 2 |
chr18:29206995-29206995 | p.G289V | 2 |
chr18:29246273-29246273 | p.I60V | 2 |
chr18:29218625-29218625 | p.A190A | 2 |
chr18:29225417-29225417 | p.S124R | 2 |
chr18:29207071-29207071 | p.E264* | 2 |
chr18:29264323-29264325 | p.F22delF | 2 |
chr18:29225320-29225320 | p.K157E | 2 |
chr18:29264345-29264345 | p.L15L | 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 | 1 | 2 |   | 8 | 1 |   | 2 |   | 1 |   |   | 5 | 2 |   |   |   | 2 | 3 |   | 6 |
# mutation | 1 | 2 |   | 8 | 1 |   | 2 |   | 1 |   |   | 5 | 2 |   |   |   | 2 | 3 |   | 7 |
nonsynonymous SNV | 1 | 1 |   | 6 | 1 |   | 2 |   |   |   |   | 5 | 2 |   |   |   |   | 2 |   | 6 |
synonymous SNV |   | 1 |   | 2 |   |   |   |   | 1 |   |   |   |   |   |   |   | 2 | 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]) |
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 |
chr18:29206995 | p.K157E | 2 |
chr18:29225320 | p.G289V | 2 |
chr18:29211065 | p.R49P | 1 |
chr18:29264301 | p.Y256C | 1 |
chr18:29206997 | p.Y42H | 1 |
chr18:29211087 | p.K255N | 1 |
chr18:29264327 | p.Y30C | 1 |
chr18:29207013 | p.H248Y | 1 |
chr18:29218625 | p.F21L | 1 |
chr18:29205585 | p.R247H | 1 |
Other DBs for Point Mutations |
Copy Number for B4GALT6 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 B4GALT6 |
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 |
B4GALT6,BIVM,CCDC88A,CEP192,CEP76,ICA1L,TRAPPC8, PABPC4L,PHYHIPL,RAVER2,RIOK3,RNF138,RNF138P1,SCML2, SMCHD1,SPAST,TAF4B,TMOD2,TMX3,TRPC1,XKR5 | ARHGAP42,AZI2,B4GALT6,C6orf120,CCDC50,CD164,CRYBG3, DCBLD2,MICU3,FAM160B1,FBXL5,KIAA1715,NHLRC3,PPP3R1, SLC25A16,SNTB2,TMED5,SLC35G1,TMEM55A,YIPF4,ZHX1 |
ATP1B1,B4GALT6,C18orf21,C18orf25,LINC00323,DSG2,EIF5A2, ELP2,ESCO1,HRASLS,INO80C,INPP1,KIAA0040,TRAPPC8, NAPG,RBBP8,RNF138,RPRD1A,SLC39A6,ZNF24,ZNF271P | ALS2,ANO6,AZIN1,B4GALT6,PXDC1,CACNB2,CDR2L, CNTNAP4,CYP2U1,DDHD2,ECM2,FAM3C,GRIK2,KCTD3, MGC45800,PAQR3,SFXN3,SGMS1,SLC2A12,SLC4A7,TPPP3 |
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 B4GALT6 |
There's no related Drug. |
Top |
Cross referenced IDs for B4GALT6 |
* 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 @ |