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 AGT
Basic gene info.Gene symbolAGT
Gene nameangiotensinogen (serpin peptidase inhibitor, clade A, member 8)
SynonymsANHU|SERPINA8
CytomapUCSC genome browser: 1q42.2
Genomic locationchr1 :230838271-230850336
Type of geneprotein-coding
RefGenesNM_000029.3,
Ensembl idENSG00000135744
Descriptionalpha-1 antiproteinase, antitrypsinangiotensin Iangiotensin IIangiotensinogenpre-angiotensinogenserine (or cysteine) proteinase inhibitorserpin A8
Modification date20141222
dbXrefs MIM : 106150
HGNC : HGNC
Ensembl : ENSG00000135744
HPRD : 00106
Vega : OTTHUMG00000037757
ProteinUniProt: P01019
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_AGT
BioGPS: 183
Gene Expression Atlas: ENSG00000135744
The Human Protein Atlas: ENSG00000135744
PathwayNCI Pathway Interaction Database: AGT
KEGG: AGT
REACTOME: AGT
ConsensusPathDB
Pathway Commons: AGT
MetabolismMetaCyc: AGT
HUMANCyc: AGT
RegulationEnsembl's Regulation: ENSG00000135744
miRBase: chr1 :230,838,271-230,850,336
TargetScan: NM_000029
cisRED: ENSG00000135744
ContextiHOP: AGT
cancer metabolism search in PubMed: AGT
UCL Cancer Institute: AGT
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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

check002.gifOthers
OMIM 106150; gene.
145500; phenotype.
267430; phenotype.
Orphanet 243761; Essential hypertension.
97369; Renal tubular dysgenesis of genetic origin.
DiseaseKEGG Disease: AGT
MedGen: AGT (Human Medical Genetics with Condition)
ClinVar: AGT
PhenotypeMGI: AGT (International Mouse Phenotyping Consortium)
PhenomicDB: AGT

Mutations for AGT
* 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

- Statistics for Tissue and Mutation typeTop
- 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'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
ovaryAGTchr1230841684230841704chr1230865748230865768
ovaryAGTchr1230848219230848239AGTchr1230848329230848349
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)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows AGT related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
DA142897GABBR21839101051796101051878AGT845601230846160230849867
BP347159AGT15361230846101230849867GGCT53058273054432030544372

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=4

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=47)
Stat. for Synonymous SNVs
(# total SNVs=23)
Stat. for Deletions
(# total SNVs=3)
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
chr1:230846279-230846279p.V106V4
chr1:230846131-230846131p.D156N3
chr1:230846540-230846540p.A19A3
chr1:230845794-230845794p.M268T3
chr1:230838910-230838910p.A479S3
chr1:230846185-230846185p.A138T2
chr1:230841788-230841788p.S339G2
chr1:230840082-230840082p.T376S2
chr1:230846386-230846386p.P71T2
chr1:230846067-230846067p.A177V2

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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=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample22 91 4 13 74  395 15
# mutation22 91 5 13 84  1105 12
nonsynonymous SNV12 61 2 13 51  173 8
synonymous SNV1  3  3    33   32 4
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
chr1:230838910p.V106V3
chr1:230846067p.A177E3
chr1:230846279p.A479S3
chr1:230841942p.K287N2
chr1:230845930p.A469A1
chr1:230839961p.L366I1
chr1:230846180p.P222P1
chr1:230841825p.R116C1
chr1:230846371p.P449P1
chr1:230838938p.A340T1

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 AGT 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 AGT

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

A1CF,AGT,APCS,APOA2,APOA4,APOC3,ARG1,
ASPDH,C8A,C8G,CRP,F2,FGF23,LEAP2,
MT1B,PLG,PRAP1,SERPINA10,SERPINA7,SERPINC1,TM4SF5
ACAT1,ACO2,AGT,ALPK3,ATP5B,ADCK3,CHCHD3,
FH,IMMT,MLYCD,OGDH,PDHB,PDHX,PGM1,
PHYH,SDHB,SGCG,SLC2A4,SLC6A8,SOX6,TBX15

ABCC2,AGT,CLCN5,EMID1,F7,IL34,LRRC43,
MYBPHL,NCKAP5,PHYHIPL,PKLR,PLAGL2,RASL10B,SALL1,
SERPINA7,SHROOM4,SLC19A3,SLC23A1,SLC2A8,SLC5A6,TSPAN33
AGT,ASPDH,CLDN2,CRISP2,DSG3,RMDN3,GALNT14,
GGN,GPD1,GRAMD1B,KCNJ16,KCP,MAF,NR1I3,
PDZK1P1,PRSS1,SLC5A1,SLC7A7,TMEM92,UNC5CL,ZNF488
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 AGT
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
Organism-specific databasesPharmGKB PA42; -.
Organism-specific databasesCTD 183; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00999angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedHydrochlorothiazide
DB00678angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedLosartan
DB00790angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedPerindopril
DB01197angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedCaptopril
DB00269angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedChlorotrianisene
DB00286angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedConjugated Estrogens
DB00890angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedDienestrol
DB00255angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedDiethylstilbestrol
DB00783angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; investigationalEstradiol
DB00655angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedEstrone
DB00977angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedEthinyl Estradiol
DB00394angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedBeclomethasone
DB00443angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedBetamethasone
DB01222angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; investigationalBudesonide
DB01410angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; investigationalCiclesonide
DB01260angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; investigationalDesonide
DB01234angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; investigationalDexamethasone
DB00180angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; investigationalFlunisolide
DB00588angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; investigationalFluticasone Propionate
DB00741angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedHydrocortisone
DB00959angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedMethylprednisolone
DB00764angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedMometasone
DB01384angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedParamethasone
DB00860angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedPrednisolone
DB00635angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedPrednisone
DB00896angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedRimexolone
DB00620angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedTriamcinolone
DB00125angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; nutraceuticalL-Arginine
DB00155angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; nutraceuticalL-Citrulline
DB00435angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedNitric Oxide
DB00131angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; nutraceuticalAdenosine monophosphate
DB00171angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; nutraceuticalAdenosine triphosphate
DB00335angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedAtenolol
DB00722angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; investigationalLisinopril
DB01115angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approvedNifedipine
DB01258angiotensinogen (serpin peptidase inhibitor, clade A, member 8)approved; investigationalAliskiren


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Cross referenced IDs for AGT
* 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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