Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for B4GALT7
Basic gene info.Gene symbolB4GALT7
Gene namexylosylprotein beta 1,4-galactosyltransferase, polypeptide 7
SynonymsEDSP1|XGALT1|XGPT1
CytomapUCSC genome browser: 5q35.2-q35.3
Genomic locationchr5 :177027118-177037346
Type of geneprotein-coding
RefGenesNM_007255.2,
Ensembl idENSG00000027847
DescriptionUDP-Gal:beta-GlcNAc beta-1,4-galactosyltransferase 7UDP-galactose:beta-N-acetylglucosamine beta-1,4-galactosyltransferase 7beta-1,4-GalTase 7beta-1,4-galactosyltransferase 7beta-1,4-galactosyltransferase VIIbeta4Gal-T7beta4GalT-VIIgalactosyltransfe
Modification date20141215
dbXrefs MIM : 604327
HGNC : HGNC
Ensembl : ENSG00000027847
HPRD : 05060
Vega : OTTHUMG00000130851
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_B4GALT7
BioGPS: 11285
Gene Expression Atlas: ENSG00000027847
The Human Protein Atlas: ENSG00000027847
PathwayNCI Pathway Interaction Database: B4GALT7
KEGG: B4GALT7
REACTOME: B4GALT7
ConsensusPathDB
Pathway Commons: B4GALT7
MetabolismMetaCyc: B4GALT7
HUMANCyc: B4GALT7
RegulationEnsembl's Regulation: ENSG00000027847
miRBase: chr5 :177,027,118-177,037,346
TargetScan: NM_007255
cisRED: ENSG00000027847
ContextiHOP: B4GALT7
cancer metabolism search in PubMed: B4GALT7
UCL Cancer Institute: B4GALT7
Assigned class in ccmGDBC

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Phenotypic Information for B4GALT7(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: B4GALT7
Familial Cancer Database: B4GALT7
* This gene is included in those cancer gene databases.

.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

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/

check002.gifMetabolic Pathway Description
REACTOME_METABOLISM_OF_CARBOHYDRATES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: B4GALT7
MedGen: B4GALT7 (Human Medical Genetics with Condition)
ClinVar: B4GALT7
PhenotypeMGI: B4GALT7 (International Mouse Phenotyping Consortium)
PhenomicDB: B4GALT7

Mutations for B4GALT7
* 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows B4GALT7 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

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check002.gifCopy 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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check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=15)
Stat. for Synonymous SNVs
(# total SNVs=11)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

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check002.gifTop 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 positionMutation(aa)Unique sampleID count
chr5:177031265-177031265p.L46L2
chr5:177035954-177035954p.R256H2
chr5:177031406-177031406p.H93N2
chr5:177031436-177031436p.E103K2
chr5:177034445-177034445p.A186T1
chr5:177031439-177031439p.R104C1
chr5:177034457-177034457p.L190F1
chr5:177031305-177031305p.R59Q1
chr5:177031445-177031445p.E106K1
chr5:177034458-177034458p.L190R1

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check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample11 3  1     11  12 4
# mutation11 3  1     11  12 4
nonsynonymous SNV1  1         1   2 4
synonymous SNV 1 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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check002.gifTop 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 PositionMutation(aa)Unique sampleID count
chr5:177031345p.P72P1
chr5:177036618p.A88T1
chr5:177031391p.R94C1
chr5:177031409p.E106K1
chr5:177031445p.V110V1
chr5:177031459p.P113P1
chr5:177031468p.L190F1
chr5:177034457p.L190R1
chr5:177034458p.D228D1
chr5:177031200p.R256H1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy Number for B4GALT7 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 B4GALT7

check002.gifGene 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.

check002.gifDifferential 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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check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


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Gene-Gene Network Information
check002.gifCo-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

: Open all plots for all cancer types

ALKBH7,ARL6IP4,B4GALT7,BCL7C,TSR3,C1orf86,LAMTOR4,
FASTK,FIS1,JOSD2,LMAN2,MPG,NDUFS7,INAFM1,
RAB24,RABAC1,SIL1,SRA1,THAP3,TMED9,ZNHIT1
ARFRP1,ASPSCR1,B4GALT7,BAD,TSR3,COPE,CRELD2,
DPP7,MVB12A,FKBP8,GIPC1,GNB2,JMJD8,MBD3,
MPG,MRPL28,MRPL55,RBM42,RPS19BP1,SSNA1,TRADD

ALKBH4,B4GALT7,BCL7C,TSR3,C1orf35,C7orf50,CCDC12,
DDX41,FASTK,GSTK1,HARS,HIGD2A,MBLAC1,MRPL55,
MXD3,PRELID1,RAB24,RMND5B,SIL1,TMED9,WBSCR16
AHCY,APEX1,APRT,B4GALT7,BID,CECR5,DPM2,
ECE2,EXOSC5,FBXW9,MAPKAPK3,MLST8,NME2,RPL13A,
RPL18A,RPLP0,SLC35B2,SYNGR2,URM1,WDR74,ZDHHC16
check002.gifCo-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

: Open all plots for all cancer types

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check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

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Pharmacological Information for B4GALT7


There's no related Drug.
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Cross referenced IDs for B4GALT7
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section

: Open all cross reference information



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