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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 APOA5
check button Gene summary
Basic gene informationGene symbolAPOA5
Gene nameapolipoprotein A-V
SynonymsAPOAV|RAP3
CytomapUCSC genome browser: 11q23
Type of geneprotein-coding
RefGenesNM_001166598.1,
NM_052968.4,
Descriptionapo-AVapolipoprotein A5regeneration-associated protein 3
Modification date20141222
dbXrefs MIM : 606368
HGNC : HGNC
Ensembl : ENSG00000110243
HPRD : 06966
Vega : OTTHUMG00000046116
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_APOA5
BioGPS: 116519
PathwayNCI Pathway Interaction Database: APOA5
KEGG: APOA5
REACTOME: APOA5
Pathway Commons: APOA5
ContextiHOP: APOA5
ligand binding site mutation search in PubMed: APOA5
UCL Cancer Institute: APOA5
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesHPA,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 APOA5
Description by TissGene annotationsCancer gene
TissgsKTS
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:0006641triglyceride metabolic process11588264
GO:0006869lipid transport15178420
GO:0010898positive regulation of triglyceride catabolic process18635818
GO:0010902positive regulation of very-low-density lipoprotein particle remodeling18635818
GO:0042632cholesterol homeostasis19121291
GO:0045723positive regulation of fatty acid biosynthetic process18635818
GO:0050996positive regulation of lipid catabolic process16806135
GO:0051006positive regulation of lipoprotein lipase activity15178420
GO:0055090acylglycerol homeostasis11588264
GO:0070328triglyceride homeostasis19121291
GO:0006641triglyceride metabolic process11588264
GO:0006869lipid transport15178420
GO:0010898positive regulation of triglyceride catabolic process18635818
GO:0010902positive regulation of very-low-density lipoprotein particle remodeling18635818
GO:0042632cholesterol homeostasis19121291
GO:0045723positive regulation of fatty acid biosynthetic process18635818
GO:0050996positive regulation of lipid catabolic process16806135
GO:0051006positive regulation of lipoprotein lipase activity15178420
GO:0055090acylglycerol homeostasis11588264
GO:0070328triglyceride homeostasis19121291


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TissGeneExp for APOA5

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
LUSC-1.801681297-0.380508748-1.4211725496.37E-153.88E-14
LUAD-1.624812095-0.077277613-1.5475344833.53E-143.27E-13
LIHC9.90580266311.84299466-1.9371926.91E-063.03E-05


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TissGene-miRNA for APOA5

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 APOA5
TissGeneSNV for APOA5

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.E61DPRAD1
p.R179CSKCM1
p.R282HUCS1
p.R271HSTAD1
p.P326QLUAD1
p.H353YBLCA1
p.G364ESKCM1
p.R106CSKCM1
p.H379DUCEC1
p.A141PSTAD1
p.T184NLUAD1
p.E208QBLCA1
p.Q161HSTAD1
p.H353DUCEC1
p.R343HESCA1
p.G269VSTAD1
p.E168KSKCM1
p.R179HCOAD1
p.L142MTHYM1
p.Q358KTHYM1
p.V144MESCA1
p.W348LLUAD1
p.G203RLIHC1
p.S197NSKCM1
p.Q127XTHYM1
p.R284*HNSC1
p.G211SLUSC1
p.Y220HLUSC1
p.S16LHNSC1
p.L15FSKCM1
p.Q358KSARC1
p.V118MSTAD1
p.R106HLUAD1
p.E149KLUAD1
p.E149KSKCM1
p.L117MLUAD1
p.S19LCOAD1
p.E268KSKCM1
p.P76TLUAD1
p.H356NBLCA1
p.V7MPAAD1
p.T184PLUAD1
p.A23TCOAD1
p.R284*SARC1
p.V180MCOAD1
p.R204HPAAD1
p.R204CKIRC1
p.A140VGBM1
p.G269ELUAD1
p.L71MPAAD1
p.V7MUCEC1


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TissGeneCNV for APOA5

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 APOA5

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
TCGAfusionPortalPRADABRCATCGA-D8-A1JG-01BBUD13-APOA5Out-of-frameChr11:116631451Chr11:116661783


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TissGeneNet for APOA5

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)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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COAD (tumor)COAD (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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HNSC (tumor)HNSC (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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KICH (tumor)KICH (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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KIRC (tumor)KIRC (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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KIRP (tumor)KIRP (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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LIHC (tumor)LIHC (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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LUAD (tumor)LUAD (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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LUSC (tumor)LUSC (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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PRAD (tumor)PRAD (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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STAD (tumor)STAD (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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THCA (tumor)THCA (normal)
APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (tumor)APOA5, FAS, THRB, SMARCD1, USF1, USF2, PPARA, NR1H4, RAB5B (normal)
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TissGeneProg for APOA5

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 APOA5
TissGeneDrug for APOA5

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 APOA5

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0010068Coronary heart disease37BeFree,GAD,LHGDN
umls:C0524620Metabolic Syndrome X35BeFree,GAD,GWASCAT
umls:C0020557Hypertriglyceridemia33CTD_human,GAD,LHGDN,RGD
umls:C0010054Coronary Arteriosclerosis31BeFree,GAD
umls:C1522137Hypertriglyceridemia result26GAD
umls:C1956346Coronary Artery Disease25BeFree,CTD_human,GAD,LHGDN
umls:C0007222Cardiovascular Diseases20BeFree,GAD,LHGDN
umls:C0028754Obesity20BeFree,GAD
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent19BeFree,GAD
umls:C0242339Dyslipidemias18BeFree,GAD,LHGDN
umls:C0004153Atherosclerosis10BeFree,GAD,LHGDN
umls:C0003850Arteriosclerosis8BeFree
umls:C0011849Diabetes Mellitus8BeFree,GAD,LHGDN
umls:C0020473Hyperlipidemia8BeFree,GAD,LHGDN
umls:C0038454Cerebrovascular accident8BeFree,GAD,LHGDN
umls:C0027051Myocardial Infarction7BeFree,GAD
umls:C0948008Ischemic stroke7BeFree,GAD
umls:C3272363Ischemic Cerebrovascular Accident7BeFree
umls:C0011847Diabetes6BeFree
umls:C0023817Hyperlipoproteinemia Type I6BeFree,GAD
umls:C0020474Hyperlipidemia, Familial Combined5BeFree,LHGDN
umls:C0019693HIV Infections4BeFree,GAD
umls:C0497406Overweight4BeFree,GAD
umls:C0007785Cerebral Infarction3BeFree,GAD
umls:C0020479Hyperlipoproteinemia Type III3BeFree,CTD_human,GAD
umls:C0020538Hypertensive disease3BeFree,GAD
umls:C0002395Alzheimer's Disease2GAD
umls:C0007786Brain Ischemia2GAD
umls:C0020443Hypercholesterolemia2GAD
umls:C0020476Hyperlipoproteinemias2BeFree,GAD,LHGDN
umls:C0021368Inflammation2GAD,LHGDN
umls:C0021655Insulin Resistance2GAD
umls:C0025517Metabolic Diseases2BeFree
umls:C0151744Myocardial Ischemia2BeFree,GAD
umls:C0154251Lipid Metabolism Disorders2BeFree,GAD
umls:C0155626Acute myocardial infarction2BeFree
umls:C0577631Carotid Atherosclerosis2BeFree
umls:C0002871Anemia1BeFree
umls:C0007273Carotid Artery Diseases1GAD
umls:C0007771Intracranial Arteriosclerosis1GAD
umls:C0007820Cerebrovascular Disorders1GAD
umls:C0011570Mental Depression1GAD
umls:C0011881Diabetic Nephropathy1BeFree,LHGDN
umls:C0015695Fatty Liver1BeFree
umls:C0019196Hepatitis C1GAD
umls:C0020445Hypercholesterolemia, Familial1BeFree
umls:C0020459Hyperinsulinism1LHGDN
umls:C0020480Hyperlipoproteinemia Type IV1BeFree,CTD_human,ORPHANET
umls:C0020481Hyperlipoproteinemia Type V1BeFree,CLINVAR,CTD_human,ORPHANET
umls:C0020676Hypothyroidism1RGD
umls:C0022661Kidney Failure, Chronic1GAD
umls:C0023903Liver neoplasms1BeFree
umls:C0030305Pancreatitis1GAD
umls:C0032962Pregnancy Complications1GAD
umls:C0036341Schizophrenia1BeFree
umls:C0042373Vascular Diseases1BeFree
umls:C0155733Atherosclerosis of aorta1BeFree
umls:C0311277Obesity, Abdominal1GAD
umls:C0342886Primary hypertriglyceridemia1BeFree
umls:C0376358Malignant neoplasm of prostate1BeFree
umls:C0400966Non-alcoholic Fatty Liver Disease1BeFree
umls:C0497327Dementia1GAD
umls:C0518010body mass1GAD
umls:C0600139Prostate carcinoma1BeFree
umls:C0948089Acute Coronary Syndrome1BeFree
umls:C1561643Chronic Kidney Diseases1BeFree
umls:C2239176Liver carcinoma1BeFree
umls:C2362324Pediatric Obesity1BeFree
umls:C2711227Steatohepatitis1BeFree
umls:C2911645Weight Loss Adverse Event1GAD
umls:C2931862Familial hyperchylomicronemia syndrome1BeFree