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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 APCS
check button Gene summary
Basic gene informationGene symbolAPCS
Gene nameamyloid P component, serum
SynonymsHEL-S-92n|PTX2|SAP
CytomapUCSC genome browser: 1q21-q23
Type of geneprotein-coding
RefGenesNM_001639.3,
Description9.5S alpha-1-glycoproteinepididymis secretory sperm binding protein Li 92npentaxin-relatedserum amyloid P-component
Modification date20141207
dbXrefs MIM : 104770
HGNC : HGNC
Ensembl : ENSG00000132703
HPRD : 00101
Vega : OTTHUMG00000022741
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_APCS
BioGPS: 325
PathwayNCI Pathway Interaction Database: APCS
KEGG: APCS
REACTOME: APCS
Pathway Commons: APCS
ContextiHOP: APCS
ligand binding site mutation search in PubMed: APCS
UCL Cancer Institute: APCS
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 APCS
Description by TissGene annotations
* 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:0044869negative regulation by host of viral exo-alpha-sialidase activity23544079
GO:0044871negative regulation by host of viral glycoprotein metabolic process23544079
GO:0045087innate immune response23544079
GO:0045656negative regulation of monocyte differentiation14607961
GO:0046597negative regulation of viral entry into host cell23544079
GO:0048525negative regulation of viral process23544079
GO:1903016negative regulation of exo-alpha-sialidase activity23544079
GO:1903019negative regulation of glycoprotein metabolic process23544079
GO:0044869negative regulation by host of viral exo-alpha-sialidase activity23544079
GO:0044871negative regulation by host of viral glycoprotein metabolic process23544079
GO:0045087innate immune response23544079
GO:0045656negative regulation of monocyte differentiation14607961
GO:0046597negative regulation of viral entry into host cell23544079
GO:0048525negative regulation of viral process23544079
GO:1903016negative regulation of exo-alpha-sialidase activity23544079
GO:1903019negative regulation of glycoprotein metabolic process23544079


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TissGeneExp for APCS

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
LIHC10.6290915412.99013954-2.3610482.09E-071.35E-06
KICH-2.595884456-0.000348456-2.5955360.0001070.000277445


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TissGene-miRNA for APCS

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 APCS
TissGeneSNV for APCS

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.E155KSKCM3
p.S158FSKCM3
p.E125KSKCM2
p.S34FSKCM2
p.G141SSKCM2
p.S121LLUSC1
p.P196LSKCM1
p.Y159NLUAD1
p.G122SSKCM1
p.E125KCESC1
p.D77NSKCM1
p.A58SLUAD1
p.W7*SKCM1
p.Y71CUCEC1
p.S121LSKCM1
p.G213ESKCM1
p.S166ITHYM1
p.S91CLUAD1
p.E105KSKCM1
p.D164NBLCA1
p.S67ILUAD1
p.K106NLUAD1
p.D37HBLCA1
p.G130ESKCM1
p.R139XCOAD1
p.E85QHNSC1
p.G160EUCEC1
p.V221MSKCM1
p.P31SSKCM1
p.T195PUCEC1
p.L202PUCEC1
p.A17TUCEC1
p.S9FSKCM1
p.E210KSKCM1
p.D157NSKCM1
p.Y93HLIHC1
p.G141DSKCM1
p.G130VSKCM1
p.S67CLIHC1
p.H97QLUAD1
p.E210QBLCA1
p.T100ILUAD1
p.T195PKIRP1
p.Y66CLIHC1
p.L133FLUAD1
p.D180EOV1
p.W127*SKCM1
p.I216MHNSC1
p.F169SUCEC1
p.Y59HACC1
p.P132TLUAD1
p.T131ACESC1
p.W127XSKCM1
p.R139*LUAD1
p.Q140HLUAD1
p.E85KSKCM1
p.F69LLUAD1
p.V170LSKCM1


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TissGeneCNV for APCS

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 APCS

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
Chimerdb3.0ChiTaRsNACB164297APCS-APCSchr1:159557968chr1:159557963


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TissGeneNet for APCS

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)
APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR1A, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR (tumor)APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR1A, COPS5, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, FCGR3A, FCAR, TG, CALU, FCGR3B (normal)
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COAD (tumor)COAD (normal)
APCS, HNF4A, ONECUT1, GRB2, FN1, GK, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, CALU (tumor)APCS, ONECUT1, GRB2, FN1, GK, FCGR1A, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, FCAR, TG, CALU, FCGR3B (normal)
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HNSC (tumor)HNSC (normal)
APCS, HNF4A, ONECUT1, GRB2, FCGR1A, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, TG, CALU, FCGR3B (tumor)APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR1A, COPS5, FCGR2B, PITX3, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, LAMA1, FCAR, TG, CALU, FCGR3B (normal)
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KICH (tumor)KICH (normal)
APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, CALU, FCGR3B (tumor)APCS, HNF4A, ONECUT1, GRB2, FN1, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, CALU, FCGR3B (normal)
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KIRC (tumor)KIRC (normal)
APCS, HNF4A, ONECUT1, GRB2, FN1, GK, COPS5, FCGR2B, PITX3, HNF1A, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, LAMA1, FCAR, TG, CALU, FCGR3B (tumor)APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR1A, FCGR2B, PITX3, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, CALU (normal)
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KIRP (tumor)KIRP (normal)
APCS, HNF4A, ONECUT1, GRB2, GK, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, CALU, FCGR3B (tumor)APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR1A, COPS5, PITX3, HNF1A, COL4A1, CRP, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, TG, CALU, FCGR3B (normal)
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LIHC (tumor)LIHC (normal)
APCS, ONECUT1, GRB2, FN1, GK, FCGR1A, COPS5, FCGR2B, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, CALU, FCGR3B (tumor)APCS, HNF4A, ONECUT1, GRB2, FN1, GK, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, LAMA1, TG, CALU, FCGR3B (normal)
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LUAD (tumor)LUAD (normal)
APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR1A, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR (tumor)APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR1A, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, GOT2, MBL2, C1QA, FCGR3A, FCAR, CALU, FCGR3B (normal)
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LUSC (tumor)LUSC (normal)
APCS, HNF4A, ONECUT1, GRB2, FN1, GK, COPS5, FCGR2B, PITX3, HNF1A, CRP, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, CALU, FCGR3B (tumor)APCS, HNF4A, ONECUT1, GRB2, FN1, FCGR1A, COPS5, FCGR2B, PITX3, HNF1A, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, FCGR3B (normal)
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PRAD (tumor)PRAD (normal)
APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR1A, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, C4BPA, GOT2, MBL2, FCGR3A, LAMA1, FCAR, TG, CALU (tumor)APCS, HNF4A, ONECUT1, FN1, GK, FCGR1A, COPS5, FCGR2B, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, CALU, FCGR3B (normal)
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STAD (tumor)STAD (normal)
APCS, HNF4A, ONECUT1, GRB2, GK, FCGR1A, COPS5, PITX3, HNF1A, COL4A1, CRP, HES1, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR, TG, CALU, FCGR3B (tumor)APCS, ONECUT1, GRB2, FN1, GK, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, LAMA1, FCAR, TG, CALU, FCGR3B (normal)
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THCA (tumor)THCA (normal)
APCS, HNF4A, ONECUT1, GRB2, FN1, GK, FCGR1A, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, LAMA1, FCAR (tumor)APCS, HNF4A, ONECUT1, FN1, GK, FCGR1A, COPS5, FCGR2B, PITX3, HNF1A, COL4A1, CRP, HES1, C4BPA, GOT2, MBL2, C1QA, FCGR3A, TG, CALU, FCGR3B (normal)
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TissGeneProg for APCS

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 APCS
TissGeneDrug for APCS

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 APCS

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0549463X-Linked Lymphoproliferative Disorder46BeFree
umls:C2936349Plaque, Amyloid20BeFree
umls:C0149678Epstein-Barr Virus Infections11BeFree
umls:C0002726Amyloidosis8BeFree
umls:C1845076Lymphoproliferative Syndrome, X-Linked, 26BeFree
umls:C1956346Coronary Artery Disease5BeFree,CTD_human
umls:C0006413Burkitt Lymphoma4BeFree
umls:C0006849Oral candidiasis4BeFree
umls:C0024291Lymphohistiocytosis, Hemophagocytic4BeFree
umls:C0024299Lymphoma4BeFree
umls:C0004153Atherosclerosis3GAD,LHGDN
umls:C0021053Immune System Diseases3BeFree
umls:C0024141Lupus Erythematosus, Systemic3BeFree,GAD
umls:C0079731B-Cell Lymphomas3BeFree
umls:C0004364Autoimmune Diseases2BeFree,LHGDN
umls:C0006852Candidiasis of vagina2BeFree
umls:C0011847Diabetes2BeFree
umls:C0011849Diabetes Mellitus2BeFree
umls:C0017658Glomerulonephritis2BeFree
umls:C0021345Infectious Mononucleosis2BeFree
umls:C0021400Influenza2BeFree,LHGDN
umls:C0027051Myocardial Infarction2BeFree
umls:C0155626Acute myocardial infarction2BeFree
umls:C0206245Amyloid Neuropathies, Familial2BeFree,GAD
umls:C0221014Reactive systemic amyloidosis2BeFree
umls:C0276680Infection by Candida albicans2BeFree
umls:C0340293Anterior myocardial infarction2BeFree
umls:C2239176Liver carcinoma2BeFree,CTD_human
umls:C3536715AA amyloidosis2BeFree
umls:C0001768Agammaglobulinemia1BeFree
umls:C0004623Bacterial Infections1BeFree
umls:C0006840Candidiasis1BeFree
umls:C0006846Cutaneous Candidiasis1BeFree
umls:C0007222Cardiovascular Diseases1LHGDN
umls:C0009447Common Variable Immunodeficiency1BeFree
umls:C0013374Dysgammaglobulinemia1BeFree
umls:C0014836Escherichia coli Infections1BeFree
umls:C0018801Heart failure1CTD_human
umls:C0019061Hemolytic-Uremic Syndrome1BeFree
umls:C0019163Hepatitis B1BeFree
umls:C0021051Immunologic Deficiency Syndromes1BeFree
umls:C0021368Inflammation1LHGDN
umls:C0023418leukemia1BeFree
umls:C0023462Acute Megakaryocytic Leukemias1BeFree
umls:C0023903Liver neoplasms1CTD_human
umls:C0024131Lupus Vulgaris1BeFree
umls:C0024138Lupus Erythematosus, Discoid1BeFree
umls:C0028754Obesity1BeFree
umls:C0030305Pancreatitis1BeFree
umls:C0031069Familial Mediterranean Fever1BeFree
umls:C0032000Pituitary Adenoma1BeFree
umls:C0032002Pituitary Diseases1BeFree
umls:C0033375Prolactinoma1BeFree
umls:C0041234Chagas Disease1BeFree
umls:C0041296Tuberculosis1BeFree
umls:C0042769Virus Diseases1BeFree
umls:C0086438Hypogammaglobulinemia1BeFree
umls:C0153252Systemic candidiasis1BeFree
umls:C0162534Prion Diseases1BeFree
umls:C0206247Amyloid Neuropathies1LHGDN
umls:C0242994Hantavirus Infections1BeFree
umls:C0243026Sepsis1BeFree
umls:C0268380Systemic amyloidosis1BeFree
umls:C0268392Localized amyloidosis1BeFree
umls:C0281479Primary Systemic Amyloidosis1BeFree
umls:C0302810Uremia syndrome1BeFree
umls:C0333463Senile Plaques1BeFree
umls:C0346302Growth Hormone-Secreting Pituitary Adenoma1BeFree
umls:C0409974Lupus Erythematosus1BeFree
umls:C0521158Recurrent tumor1BeFree
umls:C0524910Hepatitis C, Chronic1BeFree
umls:C3714514Infection1LHGDN