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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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TissGeneSummary

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TissGeneExp

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TissGene-miRNA

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TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

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TissGeneNet

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TissGeneProg

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TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for APOC3
check button Gene summary
Basic gene informationGene symbolAPOC3
Gene nameapolipoprotein C-III
SynonymsAPOCIII|HALP2
CytomapUCSC genome browser: 11q23.3
Type of geneprotein-coding
RefGenesNM_000040.1,
Descriptionapo-CIIIapoC-IIIapolipoprotein C3
Modification date20141207
dbXrefs MIM : 107720
HGNC : HGNC
Ensembl : ENSG00000110245
HPRD : 00132
Vega : OTTHUMG00000046115
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_APOC3
BioGPS: 345
PathwayNCI Pathway Interaction Database: APOC3
KEGG: APOC3
REACTOME: APOC3
Pathway Commons: APOC3
ContextiHOP: APOC3
ligand binding site mutation search in PubMed: APOC3
UCL Cancer Institute: APOC3
Assigned class in TissGDB*A
Included tissue-specific gene expression resourcesHPA,TiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Liver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)LIHC
Reference showing the relevant tissue of APOC3Tissue-specific DNA methylation profiles regulate liver-specific expression of the APOA1/C3/A4/A5 cluster and can be manipulated with demethylating agents on intestinal cells. Guardiola M, Oliva I, Guillaumet A, Martín-Trujillo Á, Rosales R, Vallvé JC, Sabench F, Del Castillo D, Zaina S, Monk D, Ribalta J. Atherosclerosis. 2014 Dec;237(2):528-35. doi: 10.1016/j.atherosclerosis.2014.10.029. Epub 2014 Oct 22. (pmid:25463085)
go to article
Description by TissGene annotationsTissgsKTS
CNV gained TissGeneKTS
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C.

check button Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO termPubMed ID
GO:0007186G-protein coupled receptor signaling pathway16443932
GO:0010897negative regulation of triglyceride catabolic process18635818
GO:0010903negative regulation of very-low-density lipoprotein particle remodeling3973011
GO:0010916negative regulation of very-low-density lipoprotein particle clearance1917954
GO:0019433triglyceride catabolic process11060345
GO:0032489regulation of Cdc42 protein signal transduction16443932
GO:0033344cholesterol efflux11162594
GO:0033700phospholipid efflux11162594
GO:0034382chylomicron remnant clearance4020294
GO:0045717negative regulation of fatty acid biosynthetic process11060345
GO:0045833negative regulation of lipid metabolic process182536
GO:0048261negative regulation of receptor-mediated endocytosis1917954
GO:0050995negative regulation of lipid catabolic process15576844
GO:0051005negative regulation of lipoprotein lipase activity11060345
GO:0007186G-protein coupled receptor signaling pathway16443932
GO:0010897negative regulation of triglyceride catabolic process18635818
GO:0010903negative regulation of very-low-density lipoprotein particle remodeling3973011
GO:0010916negative regulation of very-low-density lipoprotein particle clearance1917954
GO:0019433triglyceride catabolic process11060345
GO:0032489regulation of Cdc42 protein signal transduction16443932
GO:0033344cholesterol efflux11162594
GO:0033700phospholipid efflux11162594
GO:0034382chylomicron remnant clearance4020294
GO:0045717negative regulation of fatty acid biosynthetic process11060345
GO:0045833negative regulation of lipid metabolic process182536
GO:0048261negative regulation of receptor-mediated endocytosis1917954
GO:0050995negative regulation of lipid catabolic process15576844
GO:0051005negative regulation of lipoprotein lipase activity11060345


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TissGeneExp for APOC3

check button Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
gene exp


check button Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01)
gene isoform exp


check button Gene expressions across normal tissues of GTEx data
(GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct)
- Here, we shows the matched tissue types only among our 28 cancer types.
normal gene exp


check button Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
DEG exp

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)
Cancer typeMean(exp) in tumorMean(exp) in matched normalLog2FCP-val.FDR
LIHC13.0987951514.95589915-1.8571042.28E-058.87E-05
KIRP-2.3277544781.854454897-4.1822093753.83E-103.90E-09
KIRC-1.5130499640.884058369-2.3971083333.47E-081.00E-07
KICH-2.6802068530.121333147-2.801545.84E-050.000160491


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TissGene-miRNA for APOC3

check button Significantly anti-correlated miRNAs of TissGene across 28 cancer types
(Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016)
(TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21)
(TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16)
(Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25))
Cancer typemiRNA idmiRNA accessionP-val.Coeff.# samples


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TissGeneMut for APOC3
TissGeneSNV for APOC3

check button nsSNV counts per each loci.
Different colors of circles represent different cancer types. Circle size denotes number of samples.
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)

* Click on the image to enlarge it in a new window.
SNV lollipop
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check button Somatic nucleotide variants of TissGene across 28 cancer types
(X-axis: cancer type and Y-axis: % of mutated samples)
The numbers in parentheses are numbers of samples with mutation (nsSNVs).
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
SNV distribution

- nsSNVs sorted by frequency.
AAchangeCancer type# samples
p.G79VSARC1
p.D83NESCA1
p.K89NSKCM1
p.V68LLUAD1
p.D65NESCA1
p.R16KSKCM1
p.V50LLUAD1
p.L7VLUSC1
p.D104NSKCM1
p.K59NBLCA1
p.K71NSKCM1
p.G34CLUAD1
p.F102LLIHC1
p.G52CLUAD1
p.V50MUCEC1
p.P93QLUSC1


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TissGeneCNV for APOC3

check button Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples)
(TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16)
CNV


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TissGeneFusions for APOC3

check button Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)
DatabaseSrcCancer typeSampleFusion geneORF5'-gene BP3'-gene BP
TCGAfusionPortalPRADAPRADTCGA-EJ-A46G-01ACEP164-APOC35UTR-5UTRChr11:117198924Chr11:116701286


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TissGeneNet for APOC3

check button Co-expressed gene networks based on protein-protein interaction data (CePIN)
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(PINA2 ppi data)
BRCA (tumor)BRCA (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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COAD (tumor)COAD (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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HNSC (tumor)HNSC (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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KICH (tumor)KICH (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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KIRC (tumor)KIRC (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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KIRP (tumor)KIRP (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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LIHC (tumor)LIHC (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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LUAD (tumor)LUAD (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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LUSC (tumor)LUSC (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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PRAD (tumor)PRAD (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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STAD (tumor)STAD (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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THCA (tumor)THCA (normal)
APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (tumor)APOC3, HNF4A, UBC, RARA, RXRA, ARFGAP1, USF1, USF2, NR2F1, NR2F2, NR2F6, NR1D1 (normal)
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TissGeneProg for APOC3

check button Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image to enlarge it in a new window.
survival 1

check button Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 2

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 3

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 4

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TissGeneClin for APOC3
TissGeneDrug for APOC3

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status


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TissGeneDisease for APOC3

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0010068Coronary heart disease28BeFree,CLINVAR,GAD,LHGDN
umls:C0010054Coronary Arteriosclerosis27BeFree,GAD
umls:C1956346Coronary Artery Disease23BeFree,CTD_human,GAD,LHGDN
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent21BeFree,GAD
umls:C0524620Metabolic Syndrome X18BeFree,GAD,LHGDN,RGD
umls:C0007222Cardiovascular Diseases15BeFree,CTD_human,GAD,LHGDN
umls:C0020557Hypertriglyceridemia14GAD,LHGDN
umls:C0242339Dyslipidemias14BeFree,GAD,LHGDN
umls:C0004153Atherosclerosis12BeFree,GAD,LHGDN
umls:C0020473Hyperlipidemia12BeFree,GAD,LHGDN
umls:C1522137Hypertriglyceridemia result11GAD
umls:C0028754Obesity10BeFree,GAD
umls:C0003850Arteriosclerosis9BeFree
umls:C0027051Myocardial Infarction9BeFree,GAD
umls:C0400966Non-alcoholic Fatty Liver Disease9BeFree
umls:C0020474Hyperlipidemia, Familial Combined7BeFree,GAD
umls:C0011847Diabetes6BeFree
umls:C0011849Diabetes Mellitus6BeFree
umls:C0011854Diabetes Mellitus, Insulin-Dependent5BeFree,GAD,RGD
umls:C0015695Fatty Liver5BeFree,GAD
umls:C0019693HIV Infections5BeFree,GAD
umls:C0020443Hypercholesterolemia5BeFree,GAD
umls:C0021655Insulin Resistance5GAD,RGD
umls:C0020538Hypertensive disease4BeFree,GAD
umls:C0023787Lipodystrophy4BeFree
umls:C0154251Lipid Metabolism Disorders4BeFree,GAD
umls:C0282577Congenital Disorders of Glycosylation4BeFree
umls:C1280433Lipoatrophy4BeFree
umls:C0002395Alzheimer's Disease3GAD
umls:C0006142Malignant neoplasm of breast3BeFree
umls:C0311277Obesity, Abdominal3BeFree,GAD
umls:C0678222Breast Carcinoma3BeFree
umls:C0740394Hyperuricemia3BeFree,GAD
umls:C2239176Liver carcinoma3BeFree,LHGDN
umls:C0008350Cholelithiasis2BeFree,GAD
umls:C0011881Diabetic Nephropathy2BeFree,GAD,LHGDN
umls:C0017327Generalized atherosclerosis2GAD
umls:C0020445Hypercholesterolemia, Familial2CTD_human,GAD
umls:C0020456Hyperglycemia2BeFree,GAD,LHGDN
umls:C0020479Hyperlipoproteinemia Type III2BeFree,GAD
umls:C0023817Hyperlipoproteinemia Type I2BeFree
umls:C0023895Liver diseases2BeFree,GAD
umls:C0023903Liver neoplasms2BeFree
umls:C0038454Cerebrovascular accident2BeFree,GAD
umls:C0151744Myocardial Ischemia2BeFree
umls:C0342883Cholesteryl Ester Transfer Protein Deficiency2BeFree
umls:C0947622Cholecystolithiasis2GAD
umls:C0948089Acute Coronary Syndrome2BeFree
umls:C1136321HIV-Associated Lipodystrophy Syndrome2GAD
umls:C1272641Systemic arterial pressure2GAD
umls:C2711227Steatohepatitis2BeFree
umls:C0002736Amyotrophic Lateral Sclerosis1GAD
umls:C0004135Ataxia Telangiectasia1BeFree
umls:C0007820Cerebrovascular Disorders1GAD
umls:C0008370Cholestasis1RGD
umls:C0008495Chorioamnionitis1GAD
umls:C0011609Drug Eruptions1CTD_human
umls:C0015944Fetal Membranes, Premature Rupture1GAD
umls:C0018799Heart Diseases1GAD
umls:C0019163Hepatitis B1LHGDN
umls:C0019196Hepatitis C1GAD
umls:C0020476Hyperlipoproteinemias1CTD_human
umls:C0020550Hyperthyroidism1RGD
umls:C0020676Hypothyroidism1RGD
umls:C0021368Inflammation1GAD
umls:C0022116Ischemia1GAD
umls:C0022658Kidney Diseases1BeFree
umls:C0022661Kidney Failure, Chronic1GAD
umls:C0022876Premature Obstetric Labor1GAD
umls:C0024121Lung Neoplasms1CTD_human
umls:C0027627Neoplasm Metastasis1BeFree
umls:C0032914Pre-Eclampsia1GAD
umls:C0035309Retinal Diseases1BeFree,GAD
umls:C0036341Schizophrenia1BeFree
umls:C0042373Vascular Diseases1BeFree
umls:C0151526Premature Birth1GAD
umls:C0206624Hepatoblastoma1BeFree
umls:C0221715Intestinal carcinoma1BeFree
umls:C0242383Age related macular degeneration1GAD
umls:C0333186Restenosis1GAD
umls:C0342276Maturity onset diabetes mellitus in young1BeFree
umls:C0473527Hypoalphalipoproteinemias1GAD
umls:C0497406Overweight1BeFree
umls:C0518010body mass1GAD
umls:C0524910Hepatitis C, Chronic1BeFree
umls:C0542037Hypotriglyceridaemia1BeFree
umls:C0577631Carotid Atherosclerosis1GAD
umls:C0852036Pregnancy associated hypertension1LHGDN
umls:C0856151Fat redistribution1BeFree
umls:C0948008Ischemic stroke1GAD
umls:C1271104Blood pressure finding1GAD
umls:C1527249Colorectal Cancer1GAD
umls:C1561955Fibrinogen Adverse Event1GAD
umls:C1704429Hypoalphalipoproteinemia, Familial1BeFree
umls:C1861172Venous Thromboembolism1GAD
umls:C2712907Combined hyperlipidemia1BeFree
umls:C2911645Weight Loss Adverse Event1GAD
umls:C2919032Infection of amniotic sac and membranes, unspecified, unspecified trimester, not applicable or unspecified1GAD
umls:C2936179Obesity, Visceral1BeFree
umls:C3151467Apolipoprotein C-III Deficiency1CLINVAR,UNIPROT
umls:C3658248Hypertriglyceridemic Waist1GAD