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| TissGeneSummary for APOC4 |
 Gene summary |
| Basic gene information | Gene symbol | APOC4 |
| Gene name | apolipoprotein C-IV | |
| Synonyms | APO-CIV|APOC-IV | |
| Cytomap | UCSC genome browser: 19q13.2 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001646.2, | |
| Description | apolipoprotein C4 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 600745 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000267467 | ||
| HPRD : 02848 | ||
| Vega : OTTHUMG00000180845 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_APOC4 | |
| BioGPS: 346 | ||
| Pathway | NCI Pathway Interaction Database: APOC4 | |
| KEGG: APOC4 | ||
| REACTOME: APOC4 | ||
| Pathway Commons: APOC4 | ||
| Context | iHOP: APOC4 | |
| ligand binding site mutation search in PubMed: APOC4 | ||
| UCL Cancer Institute: APOC4 | ||
| Assigned class in TissGDB* | C | |
| Included tissue-specific gene expression resources | HPA,TiGER | |
| 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 APOC4 | ||
| Description by TissGene annotations | 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. |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO term | PubMed ID |
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| TissGeneExp for APOC4 |
| 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) |
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| 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 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. |
| 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) |
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| - Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
| Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
| LUSC | -1.58358554 | -0.57166201 | -1.011923529 | 2.92E-08 | 8.71E-08 |
| KIRP | -1.041127758 | -2.197249633 | 1.156121875 | 1.13E-06 | 5.66E-06 |
| KICH | -0.795121383 | -2.250477383 | 1.455356 | 9.66E-09 | 5.18E-08 |
| LUAD | -1.522003728 | -0.406039934 | -1.115963793 | 4.67E-09 | 2.18E-08 |
| LIHC | 8.999836617 | 10.91067462 | -1.910838 | 0.00011 | 0.000377022 |
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| TissGene-miRNA for APOC4 |
| 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 type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
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| TissGeneMut for APOC4 |
| TissGeneSNV for APOC4 |
| 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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| 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) |
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| - nsSNVs sorted by frequency. |
| AAchange | Cancer type | # samples |
| p.L102I | STAD | 1 |
| p.G68R | COAD | 1 |
| p.L90R | COAD | 1 |
| p.S107N | KIRP | 1 |
| p.L102F | SKCM | 1 |
| p.D106H | BLCA | 1 |
| p.M82I | STAD | 1 |
| p.S2F | SKCM | 1 |
| p.P12S | UCEC | 1 |
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| TissGeneCNV for APOC4 |
| 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) |
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| TissGeneFusions for APOC4 |
| Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
| Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
| Chimerdb3.0 | ChiTaRs | NA | AA345841 | APOC4-DLG3 | chr19:45452048 | chrX:69723377 |
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| TissGeneNet for APOC4 |
| 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) |
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| TissGeneProg for APOC4 |
| 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. |
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| 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. |
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| 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. |
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| 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. |
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| TissGeneClin for APOC4 |
| TissGeneDrug for APOC4 |
| Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
| DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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| TissGeneDisease for APOC4 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0010068 | Coronary heart disease | 4 | BeFree,GAD |
| umls:C0011860 | Diabetes Mellitus, Non-Insulin-Dependent | 2 | GAD |
| umls:C0019196 | Hepatitis C | 2 | BeFree,GAD |
| umls:C0007222 | Cardiovascular Diseases | 1 | GAD |
| umls:C0015695 | Fatty Liver | 1 | BeFree |
| umls:C0021368 | Inflammation | 1 | GAD |
| umls:C0021655 | Insulin Resistance | 1 | GAD |
| umls:C0023903 | Liver neoplasms | 1 | BeFree |
| umls:C0524620 | Metabolic Syndrome X | 1 | BeFree |
| umls:C1956346 | Coronary Artery Disease | 1 | GAD |
| umls:C2239176 | Liver carcinoma | 1 | BeFree |
| umls:C2711227 | Steatohepatitis | 1 | BeFree |
| umls:C3714619 | Insulin resistance syndrome | 1 | BeFree |
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