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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 APOA2
check button Gene summary
Basic gene informationGene symbolAPOA2
Gene nameapolipoprotein A-II
SynonymsApo-AII|ApoA-II|apoAII
CytomapUCSC genome browser: 1q23.3
Type of geneprotein-coding
RefGenesNM_001643.1,
Descriptionapolipoprotein A2
Modification date20141207
dbXrefs MIM : 107670
HGNC : HGNC
Ensembl : ENSG00000158874
HPRD : 00129
Vega : OTTHUMG00000034346
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_APOA2
BioGPS: 336
PathwayNCI Pathway Interaction Database: APOA2
KEGG: APOA2
REACTOME: APOA2
Pathway Commons: APOA2
ContextiHOP: APOA2
ligand binding site mutation search in PubMed: APOA2
UCL Cancer Institute: APOA2
Assigned class in TissGDB*B
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 APOA2
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:0002740negative regulation of cytokine secretion involved in immune response12458630
GO:0006457protein folding14967812
GO:0006656phosphatidylcholine biosynthetic process14967812
GO:0009395phospholipid catabolic process14967812
GO:0009749response to glucose14988251
GO:0010873positive regulation of cholesterol esterification14967812
GO:0010903negative regulation of very-low-density lipoprotein particle remodeling14967812
GO:0018158protein oxidation12576517
GO:0018206peptidyl-methionine modification12576517
GO:0031647regulation of protein stability14967812
GO:0033344cholesterol efflux11162594
GO:0033700phospholipid efflux11162594
GO:0034370triglyceride-rich lipoprotein particle remodeling14967812
GO:0034374low-density lipoprotein particle remodeling8106353
GO:0034375high-density lipoprotein particle remodeling14967812
GO:0034380high-density lipoprotein particle assembly218942
GO:0034384high-density lipoprotein particle clearance10764676
GO:0042632cholesterol homeostasis14967812
GO:0043085positive regulation of catalytic activity14967812
GO:0043691reverse cholesterol transport14967812
GO:0045416positive regulation of interleukin-8 biosynthetic process11591715
GO:0046340diacylglycerol catabolic process14967812
GO:0050995negative regulation of lipid catabolic process14967812
GO:0050996positive regulation of lipid catabolic process8640403
GO:0060192negative regulation of lipase activity14967812
GO:0060621negative regulation of cholesterol import10764676
GO:0060695negative regulation of cholesterol transporter activity8106353
GO:0002740negative regulation of cytokine secretion involved in immune response12458630
GO:0006457protein folding14967812
GO:0006656phosphatidylcholine biosynthetic process14967812
GO:0009395phospholipid catabolic process14967812
GO:0009749response to glucose14988251
GO:0010873positive regulation of cholesterol esterification14967812
GO:0010903negative regulation of very-low-density lipoprotein particle remodeling14967812
GO:0018158protein oxidation12576517
GO:0018206peptidyl-methionine modification12576517
GO:0031647regulation of protein stability14967812
GO:0033344cholesterol efflux11162594
GO:0033700phospholipid efflux11162594
GO:0034370triglyceride-rich lipoprotein particle remodeling14967812
GO:0034374low-density lipoprotein particle remodeling8106353
GO:0034375high-density lipoprotein particle remodeling14967812
GO:0034380high-density lipoprotein particle assembly218942
GO:0034384high-density lipoprotein particle clearance10764676
GO:0042632cholesterol homeostasis14967812
GO:0043085positive regulation of catalytic activity14967812
GO:0043691reverse cholesterol transport14967812
GO:0045416positive regulation of interleukin-8 biosynthetic process11591715
GO:0046340diacylglycerol catabolic process14967812
GO:0050995negative regulation of lipid catabolic process14967812
GO:0050996positive regulation of lipid catabolic process8640403
GO:0060192negative regulation of lipase activity14967812
GO:0060621negative regulation of cholesterol import10764676
GO:0060695negative regulation of cholesterol transporter activity8106353


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TissGeneExp for APOA2

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
STAD-0.473805575-1.8032805751.3294750.009370.032722252
COAD-1.203432499-2.2462555761.0428230770.01380.029241586
KIRP-1.920505575-0.893793075-1.02671250.0001930.00061639


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TissGene-miRNA for APOA2

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 APOA2
TissGeneSNV for APOA2

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.
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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.R55WBLCA1
p.M49ISKCM1
p.M34VBLCA1
p.M1ITGCT1
p.A98DUCEC1
p.E93KBLCA1
p.M1VBLCA1
p.K69NUCEC1
p.G80*LUSC1


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TissGeneCNV for APOA2

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 APOA2

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
Chimerdb3.0ChiTaRsNAAI064980DEFA1-APOA2chr8:6856718chr1:161192236
Chimerdb3.0ChiTaRsNAAF063569APOA2-PFKFB2chr1:161192731chr1:207221981
Chimerdb3.0ChiTaRsNAAI207725APOA2-SND1chr1:161193414chr7:127732510
Chimerdb3.0ChiTaRsNAAI336287FHL3-APOA2chr1:38462846chr1:161192762
Chimerdb3.0ChiTaRsNAAI064779APOA2-PNPchr1:161193418chr14:20944930
Chimerdb3.0ChiTaRsNAAF090896APOA2-PFKFB2chr1:161192731chr1:207219676
Chimerdb3.0FusionScanPRADTCGA-EJ-5518-01AMEF2D-APOA25'UTR-5'UTRchr1:156470277chr1:161193215
Chimerdb3.0TopHat-FusionPRADTCGA-EJ-5518-01AMEF2D-APOA25'UTR-5'UTRchr1:156470277chr1:161193214


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TissGeneNet for APOA2

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)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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COAD (tumor)COAD (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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HNSC (tumor)HNSC (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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KICH (tumor)KICH (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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KIRC (tumor)KIRC (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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KIRP (tumor)KIRP (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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LIHC (tumor)LIHC (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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LUAD (tumor)LUAD (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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LUSC (tumor)LUSC (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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PRAD (tumor)PRAD (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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STAD (tumor)STAD (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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THCA (tumor)THCA (normal)
APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (tumor)APOA2, HNF4A, CFTR, RARB, APOD, CEBPA, THRB, USF2, HNF1A, C4A, ABCA13, PLTP, APOF, APOC1, APOA1BP (normal)
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TissGeneProg for APOA2

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 APOA2
TissGeneDrug for APOA2

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 APOA2

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0004153Atherosclerosis12BeFree,GAD
umls:C0003850Arteriosclerosis11BeFree
umls:C0028754Obesity7BeFree,GAD
umls:C0010068Coronary heart disease6BeFree,GAD
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent6BeFree,GAD
umls:C0010054Coronary Arteriosclerosis5BeFree
umls:C0020474Hyperlipidemia, Familial Combined5BeFree,LHGDN
umls:C0002726Amyloidosis4BeFree
umls:C1956346Coronary Artery Disease4BeFree,LHGDN
umls:C0019196Hepatitis C3BeFree,GAD
umls:C2712907Combined hyperlipidemia3BeFree
umls:C0020459Hyperinsulinism2BeFree
umls:C0020473Hyperlipidemia2BeFree,GAD
umls:C0020557Hypertriglyceridemia2GAD,LHGDN
umls:C0039292Tangier Disease2BeFree
umls:C0518010body mass2GAD
umls:C2239176Liver carcinoma2BeFree
umls:C0005684Malignant neoplasm of urinary bladder1GAD
umls:C0007959Charcot-Marie-Tooth Disease1BeFree
umls:C0011847Diabetes1BeFree
umls:C0011849Diabetes Mellitus1BeFree
umls:C0019158Hepatitis1BeFree
umls:C0019159Hepatitis A1BeFree
umls:C0020445Hypercholesterolemia, Familial1BeFree,CLINVAR,CTD_human
umls:C0020456Hyperglycemia1BeFree
umls:C0020550Hyperthyroidism1RGD
umls:C0021368Inflammation1GAD
umls:C0021655Insulin Resistance1GAD
umls:C0023195Lecithin Acyltransferase Deficiency1BeFree
umls:C0024117Chronic Obstructive Airway Disease1GAD
umls:C0024305Lymphoma, Non-Hodgkin1GAD
umls:C0027051Myocardial Infarction1BeFree
umls:C0030481Tropical Spastic Paraparesis1BeFree
umls:C0042721Viral hepatitis1BeFree
umls:C0154251Lipid Metabolism Disorders1BeFree
umls:C0156344Endometriosis of ovary1BeFree
umls:C0242379Malignant neoplasm of lung1GAD
umls:C0268382Amyloid nephropathy1BeFree
umls:C0342883Cholesteryl Ester Transfer Protein Deficiency1BeFree
umls:C0342895Fish-Eye Disease1BeFree
umls:C0442874Neuropathy1BeFree
umls:C0524620Metabolic Syndrome X1BeFree
umls:C1261473Sarcoma1BeFree
umls:C1271104Blood pressure finding1GAD
umls:C1272641Systemic arterial pressure1GAD
umls:C1522137Hypertriglyceridemia result1GAD
umls:C1559271Non-Malignant Ascites Adverse Event1BeFree
umls:C2936179Obesity, Visceral1BeFree
umls:C3714619Insulin resistance syndrome1BeFree
umls:C0745103Hyperlipoproteinemia Type IIa0CTD_human