Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

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 TH
Basic gene info.Gene symbolTH
Gene nametyrosine hydroxylase
SynonymsDYT14|DYT5b|TYH
CytomapUCSC genome browser: 11p15.5
Genomic locationchr11 :2185158-2193035
Type of geneprotein-coding
RefGenesNM_000360.3,
NM_199292.2,NM_199293.2,
Ensembl idENSG00000180176
Descriptiondystonia 14tyrosine 3-hydroxylasetyrosine 3-monooxygenase
Modification date20141219
dbXrefs MIM : 191290
HGNC : HGNC
Ensembl : ENSG00000180176
HPRD : 01865
Vega : OTTHUMG00000009559
ProteinUniProt: P07101
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_TH
BioGPS: 7054
Gene Expression Atlas: ENSG00000180176
The Human Protein Atlas: ENSG00000180176
PathwayNCI Pathway Interaction Database: TH
KEGG: TH
REACTOME: TH
ConsensusPathDB
Pathway Commons: TH
MetabolismMetaCyc: TH
HUMANCyc: TH
RegulationEnsembl's Regulation: ENSG00000180176
miRBase: chr11 :2,185,158-2,193,035
TargetScan: NM_000360
cisRED: ENSG00000180176
ContextiHOP: TH
cancer metabolism search in PubMed: TH
UCL Cancer Institute: TH
Assigned class in ccmGDBB - This gene belongs to cancer gene.

Top
Phenotypic Information for TH(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: TH
Familial Cancer Database: TH
* 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
KEGG_TYROSINE_METABOLISM
REACTOME_METABOLISM_OF_AMINO_ACIDS_AND_DERIVATIVES

check002.gifOthers
OMIM 191290; gene.
191290; gene.
605407; phenotype.
605407; phenotype.
Orphanet 101150; Autosomal recessive dopa-responsive dystonia.
101150; Autosomal recessive dopa-responsive dystonia.
DiseaseKEGG Disease: TH
MedGen: TH (Human Medical Genetics with Condition)
ClinVar: TH
PhenotypeMGI: TH (International Mouse Phenotyping Consortium)
PhenomicDB: TH

Mutations for TH
* 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 TH 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

Top
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.

Top
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=2

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=33)
Stat. for Synonymous SNVs
(# total SNVs=18)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

Top
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
chr11:2186500-2186500p.F463F2
chr11:2186573-2186573p.E439A2
chr11:2189733-2189733p.A190S2
chr11:2186909-2186909p.G428W2
chr11:2193002-2193002p.D5D2
chr11:2193005-2193005p.P4P2
chr11:2189794-2189794p.R169R2
chr11:2188238-2188238p.K271K2
chr11:2185608-2185608p.R481H2
chr11:2191098-2191098p.P63T2

Top
check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=1

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample 1 61 2    541  114 3
# mutation 1 71 2    541  125 4
nonsynonymous SNV 1 2  1    421  92 3
synonymous SNV   51 1    12   33 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
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
chr11:2191098p.P32T,TH2
chr11:2185535p.P461P,TH1
chr11:2191095p.C176Y,TH1
chr11:2186909p.K24K,TH1
chr11:2189775p.V457M,TH1
chr11:2185559p.P167S,TH1
chr11:2186914p.E20Q,TH1
chr11:2189797p.S456F,TH1
chr11:2185574p.G160R,TH1
chr11:2192945p.D5D,TH1

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 TH 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 TH

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

: Open all plots for all cancer types


Top
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

AP1G2,C14orf93,DCAF11,FBP1,GHDC,GMPR2,HAUS4,
HOMEZ,HSD17B8,LRP10,MDP1,ZNF205-AS1,NEDD8,RAB17,
RBM23,RNF31,SDR39U1,THTPA,TINF2,TM9SF1,WDR25
AARS,ACAD9,ASCC2,BCAP31,CRELD1,GRHPR,HINT2,
HOOK2,IFI27L1,ITFG3,KLHL22,LOC729991,MRPL24,NME4,
POLR2L,PRR5,PSMD8,SNX17,THTPA,TST,UROD

AP4S1,APEX1,DNAAF2,TMEM251,C14orf119,CCDC71,CHMP4A,
GMPR2,LOC100009676,MDP1,MGAT2,NEDD8,NGDN,PSMB5,
RBM23,SCAF11___GEMIN2___ZEB2,THTPA,TINF2,TMEM55B,TOX4,TTC5
AIP,AMZ2,ARL2,BBS4,BCL7C,BOLA1,FAM216A,
C1orf54,C6orf1,CAMLG,CUEDC2,MPV17,MRPL40,MYL6B,
SNAPIN,SNRPN,THTPA,TMSB15B,TRMT112,UROD,ZNF32
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

Top
check002.gifInteracting Genes (from Pathway Commons)

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

Top
Pharmacological Information for TH
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
ChemistryBindingDB P07101; -.
ChemistryChEMBL CHEMBL1969; -.
ChemistryGuidetoPHARMACOLOGY 1243; -.
ChemistryBindingDB P07101; -.
ChemistryChEMBL CHEMBL1969; -.
ChemistryGuidetoPHARMACOLOGY 1243; -.
Organism-specific databasesPharmGKB PA351; -.
Organism-specific databasesPharmGKB PA351; -.
Organism-specific databasesCTD 7054; -.
Organism-specific databasesCTD 7054; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00120tyrosine hydroxylaseapproved; nutraceuticalL-Phenylalanine
DB00135tyrosine hydroxylaseapproved; nutraceuticalL-Tyrosine
DB00360tyrosine hydroxylaseapproved; investigationalTetrahydrobiopterin
DB00765tyrosine hydroxylaseapprovedMetyrosine
DB03552tyrosine hydroxylaseexperimentalMeta-Tyrosine
DB04400tyrosine hydroxylaseexperimental7,8-Dihydrobiopterin
DB01394tyrosine hydroxylaseapprovedColchicine
DB00988tyrosine hydroxylaseapprovedDopamine
DB00864tyrosine hydroxylaseapproved; investigationalTacrolimus
DB01235tyrosine hydroxylaseapprovedLevodopa
DB00368tyrosine hydroxylaseapprovedNorepinephrine


Top
Cross referenced IDs for TH
* 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



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas