Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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 HSD11B1
Basic gene info.Gene symbolHSD11B1
Gene namehydroxysteroid (11-beta) dehydrogenase 1
Synonyms11-DH|11-beta-HSD1|CORTRD2|HDL|HSD11|HSD11B|HSD11L|SDR26C1
CytomapUCSC genome browser: 1q32-q41
Genomic locationchr1 :209859524-209908295
Type of geneprotein-coding
RefGenesNM_001206741.1,
NM_005525.3,NM_181755.2,
Ensembl idENSG00000117594
Descriptioncorticosteroid 11-beta-dehydrogenase isozyme 1short chain dehydrogenase/reductase family 26C, member 1
Modification date20141207
dbXrefs MIM : 600713
HGNC : HGNC
Ensembl : ENSG00000117594
HPRD : 07042
Vega : OTTHUMG00000036481
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_HSD11B1
BioGPS: 3290
Gene Expression Atlas: ENSG00000117594
The Human Protein Atlas: ENSG00000117594
PathwayNCI Pathway Interaction Database: HSD11B1
KEGG: HSD11B1
REACTOME: HSD11B1
ConsensusPathDB
Pathway Commons: HSD11B1
MetabolismMetaCyc: HSD11B1
HUMANCyc: HSD11B1
RegulationEnsembl's Regulation: ENSG00000117594
miRBase: chr1 :209,859,524-209,908,295
TargetScan: NM_001206741
cisRED: ENSG00000117594
ContextiHOP: HSD11B1
cancer metabolism search in PubMed: HSD11B1
UCL Cancer Institute: HSD11B1
Assigned class in ccmGDBC

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Phenotypic Information for HSD11B1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: HSD11B1
Familial Cancer Database: HSD11B1
* 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_STEROID_HORMONES_AND_VITAMINS_A_AND_D
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: HSD11B1
MedGen: HSD11B1 (Human Medical Genetics with Condition)
ClinVar: HSD11B1
PhenotypeMGI: HSD11B1 (International Mouse Phenotyping Consortium)
PhenomicDB: HSD11B1

Mutations for HSD11B1
* 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 HSD11B1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BG954179HNRNPH31264107009834070099312HSD11B12532721209897701209897720

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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample21               
GAIN (# sample)2                
LOSS (# sample) 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)

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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=5

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=26)
Stat. for Synonymous SNVs
(# total SNVs=9)
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
chr1:209879201-209879201p.G45V3
chr1:209879205-209879205p.I46I2
chr1:209879272-209879272p.E69K2
chr1:209880344-209880344p.H130Y2
chr1:209879168-209879168p.G34E2
chr1:209880129-209880129p.A99T2
chr1:209879200-209879200p.G45R2
chr1:209880400-209880400p.V148V2
chr1:209907741-209907741p.R252C2
chr1:209907747-209907747p.E254*1

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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
# sample 2 21   2  23   123 7
# mutation 2 21   2  23   113 7
nonsynonymous SNV 2 21      13   103 4
synonymous SNV        2  1    1  3
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
chr1:209879201p.G45V,HSD11B12
chr1:209879272p.E69K,HSD11B12
chr1:209880056p.Y19H,HSD11B11
chr1:209880398p.N119N,HSD11B11
chr1:209878342p.E26K,HSD11B11
chr1:209880108p.S125C,HSD11B11
chr1:209880416p.G45R,HSD11B11
chr1:209878363p.L128I,HSD11B11
chr1:209880129p.H130Y,HSD11B11
chr1:209905834p.I46I,HSD11B11

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 HSD11B1 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 HSD11B1

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

AADAC,C1orf141,FOXL2NB,MGARP,CELA2A,CYP11A1,CYP17A1,
CYP19A1,FSHR,HSD11B1,HSD3B1,INSL3,KLHL4,LHCGR,
MBOAT4,MRO,REG3G,STAR,TCF21,TCF23,TREML5P
BHMT2,CDKN2B,CHRDL1,CRTAP,DOCK11,DPT,GLP2R,
GNG2,GNS,HSD11B1,ITGB1,ITIH5,PCOLCE2,PEA15,
RASA3,RHOQ,SEMA3G,SPTBN1,SRPX2,STS,UCHL1

ABCA6,ACSM5,ADIPOQ,ALPL,MEDAG,C1orf162,CCDC80,
CD36,CYP1B1,FMO2,HSD11B1,LBP,LOC339524,LTBP2,
MFAP5,MRAP,MSC,PDE1B,SEMA3G,SLITRK4,SPTA1
TMEM237,ANXA1,ARL13B,CMSS1,CDH19,COPS8,CTPS1,
DYNC1LI1,EXOC5,EYA4,FGF10,HSD11B1,IL33,CFAP97,
LPAR1,NBN,PRDM5,SEPT2,SPP1,TNFAIP6,UTP11L
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 HSD11B1
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00157hydroxysteroid (11-beta) dehydrogenase 1approved; nutraceuticalNADH
DB02329hydroxysteroid (11-beta) dehydrogenase 1experimentalCarbenoxolone
DB03461hydroxysteroid (11-beta) dehydrogenase 1experimental2'-Monophosphoadenosine 5'-Diphosphoribose
DB03814hydroxysteroid (11-beta) dehydrogenase 1experimental2-(N-Morpholino)-Ethanesulfonic Acid
DB04652hydroxysteroid (11-beta) dehydrogenase 1experimental(11-BETA)-11,21-DIHYDROXY-PREGN-4-ENE-3,20-DIONE
DB06992hydroxysteroid (11-beta) dehydrogenase 1experimental(3,3-dimethylpiperidin-1-yl)(6-(3-fluoro-4-methylphenyl)pyridin-2-yl)methanone
DB07017hydroxysteroid (11-beta) dehydrogenase 1experimental(5S)-2-{[(1S)-1-(4-fluorophenyl)ethyl]amino}-5-(1-hydroxy-1-methylethyl)-5-methyl-1,3-thiazol-4(5H)-one
DB07049hydroxysteroid (11-beta) dehydrogenase 1experimental(2R)-1-[(4-tert-butylphenyl)sulfonyl]-2-methyl-4-(4-nitrophenyl)piperazine
DB07056hydroxysteroid (11-beta) dehydrogenase 1experimental2-(6-{[(3-chloro-2-methylphenyl)sulfonyl]amino}pyridin-2-yl)-N,N-diethylacetamide
DB07310hydroxysteroid (11-beta) dehydrogenase 1experimental(5S)-2-{[(1S)-1-(2-fluorophenyl)ethyl]amino}-5-methyl-5-(trifluoromethyl)-1,3-thiazol-4(5H)-one
DB07316hydroxysteroid (11-beta) dehydrogenase 1experimentalN-{1-[(1-carbamoylcyclopropyl)methyl]piperidin-4-yl}-N-cyclopropyl-4-[(1S)-2,2,2-trifluoro-1-hydroxy-1-methylethyl]benzamide
DB07619hydroxysteroid (11-beta) dehydrogenase 1experimentalN-cyclopropyl-N-(trans-4-pyridin-3-ylcyclohexyl)-4-[(1S)-2,2,2-trifluoro-1-hydroxy-1-methylethyl]benzamide
DB07624hydroxysteroid (11-beta) dehydrogenase 1experimental1-{[(3R)-3-methyl-4-({4-[(1S)-2,2,2-trifluoro-1-hydroxy-1-methylethyl]phenyl}sulfonyl)piperazin-1-yl]methyl}cyclopropanecarboxamide
DB07866hydroxysteroid (11-beta) dehydrogenase 1experimental(5S)-2-(cyclooctylamino)-5-methyl-5-propyl-1,3-thiazol-4(5H)-one
DB08277hydroxysteroid (11-beta) dehydrogenase 1experimental2-(2-CHLORO-4-FLUOROPHENOXY)-2-METHYL-N-[(1R,2S,3S,5S,7S)-5-(METHYLSULFONYL)-2-ADAMANTYL]PROPANAMIDE
DB08280hydroxysteroid (11-beta) dehydrogenase 1experimental(1S,3R,4S,5S,7S)-4-{[2-(4-METHOXYPHENOXY)-2-METHYLPROPANOYL]AMINO}ADAMANTANE-1-CARBOXAMIDE
DB08771hydroxysteroid (11-beta) dehydrogenase 1experimental(5R)-2-[(2-fluorophenyl)amino]-5-(1-methylethyl)-1,3-thiazol-4(5H)-one
DB00741hydroxysteroid (11-beta) dehydrogenase 1approvedHydrocortisone
DB01132hydroxysteroid (11-beta) dehydrogenase 1approved; investigationalPioglitazone
DB00412hydroxysteroid (11-beta) dehydrogenase 1approved; investigationalRosiglitazone
DB00197hydroxysteroid (11-beta) dehydrogenase 1withdrawnTroglitazone
DB00635hydroxysteroid (11-beta) dehydrogenase 1approvedPrednisone


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Cross referenced IDs for HSD11B1
* 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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