 |
| |
| |
| |
| |
| |
| |
|
| TissGeneSummary for SAA1 |
 Gene summary |
| Basic gene information | Gene symbol | SAA1 |
| Gene name | serum amyloid A1 | |
| Synonyms | PIG4|SAA|SAA2|TP53I4 | |
| Cytomap | UCSC genome browser: 11p15.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_000331.4, NM_001178006.1,NM_199161.3, | |
| Description | serum amyloid A proteinserum amyloid A-1 proteintumor protein p53 inducible protein 4 | |
| Modification date | 20141222 | |
| dbXrefs | MIM : 104750 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000173432 | ||
| HPRD : 00097 | ||
| Vega : OTTHUMG00000166147 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_SAA1 | |
| BioGPS: 6288 | ||
| Pathway | NCI Pathway Interaction Database: SAA1 | |
| KEGG: SAA1 | ||
| REACTOME: SAA1 | ||
| Pathway Commons: SAA1 | ||
| Context | iHOP: SAA1 | |
| ligand binding site mutation search in PubMed: SAA1 | ||
| UCL Cancer Institute: SAA1 | ||
| Assigned class in TissGDB* | C | |
| Included tissue-specific gene expression resources | 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 SAA1 | ||
| 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. |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO term | PubMed ID | GO:0007204 | positive regulation of cytosolic calcium ion concentration | 9892621 | GO:0045785 | positive regulation of cell adhesion | 11830469 | GO:0048246 | macrophage chemotaxis | 7561109 | GO:0048247 | lymphocyte chemotaxis | 7636186 | GO:0050715 | positive regulation of cytokine secretion | 12857601 | GO:0007204 | positive regulation of cytosolic calcium ion concentration | 9892621 | GO:0045785 | positive regulation of cell adhesion | 11830469 | GO:0048246 | macrophage chemotaxis | 7561109 | GO:0048247 | lymphocyte chemotaxis | 7636186 | GO:0050715 | positive regulation of cytokine secretion | 12857601 |
| Top |
| TissGeneExp for SAA1 |
| 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 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) |
 |
| - 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 |
| LIHC | 5.214542387 | 8.730812387 | -3.51627 | 5.49E-07 | 3.13E-06 |
| BRCA | 2.066066913 | 6.853001124 | -4.786934211 | 1.05E-36 | 2.15E-35 |
| LUAD | 0.884265008 | -0.456631544 | 1.340896552 | 0.00162 | 0.00342475 |
| KICH | -3.867567613 | -1.974675613 | -1.892892 | 0.00082 | 0.001798289 |
| ESCA | 2.955347296 | -2.133479977 | 5.088827273 | 6.95E-06 | 0.000913862 |
| KIRC | -0.10579778 | -2.053257502 | 1.947459722 | 0.000453 | 0.000887389 |
| Top |
| TissGene-miRNA for SAA1 |
| 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 |
| Top |
| TissGeneMut for SAA1 |
| TissGeneSNV for SAA1 |
| 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. |
 |
 |
| 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) |
 |
| - nsSNVs sorted by frequency. |
| AAchange | Cancer type | # samples |
| p.S23L | SKCM | 3 |
| p.I83M | BLCA | 1 |
| p.E27K | BRCA | 1 |
| p.D41N | SKCM | 1 |
| p.R19* | SKCM | 1 |
| p.G117D | UCEC | 1 |
| p.E120D | UCEC | 1 |
| p.E74D | PAAD | 1 |
| p.A100V | COAD | 1 |
| p.E120Q | BLCA | 1 |
| p.R80T | CESC | 1 |
| p.R19* | UCEC | 1 |
| p.A99T | SKCM | 1 |
| p.S18R | SKCM | 1 |
| p.R57W | CESC | 1 |
| Top |
| TissGeneCNV for SAA1 |
| 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) |
 |
| Top |
| TissGeneFusions for SAA1 |
| 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 | BC070311 | SAA1-GYS2 | chr11:18291274 | chr12:21689127 | |
| Chimerdb3.0 | ChiTaRs | NA | BG562889 | SAA1-APOA2 | chr11:18290879 | chr1:161192152 | |
| Chimerdb3.0 | ChiTaRs | NA | BP384371 | SAA1-CRIP2 | chr11:18291465 | chr14:105946164 | |
| Chimerdb3.0 | FusionScan | BRCA | TCGA-BH-A0BZ-11A | RNF214-SAA1 | Out-of-Frame | chr11:117105095 | chr11:18290741 |
| Top |
| TissGeneNet for SAA1 |
| 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) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| COAD (tumor) | COAD (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| HNSC (tumor) | HNSC (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| KICH (tumor) | KICH (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| KIRC (tumor) | KIRC (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| KIRP (tumor) | KIRP (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| LIHC (tumor) | LIHC (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| LUAD (tumor) | LUAD (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| LUSC (tumor) | LUSC (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| PRAD (tumor) | PRAD (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| STAD (tumor) | STAD (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| THCA (tumor) | THCA (normal) |
| SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (tumor) | SAA1, HNF4A, PITX3, FPR1, ICAM1, COL4A1, APOA1, COL4A2, COL4A4, LAMA1, GLUD2 (normal) |
 |  |
| Top |
| TissGeneProg for SAA1 |
| 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. |
 |
| 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. |
 |
| 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. |
 |
| 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. |
 |
| Top |
| TissGeneClin for SAA1 |
| TissGeneDrug for SAA1 |
| Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
| DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
| Top |
| TissGeneDisease for SAA1 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0002726 | Amyloidosis | 31 | BeFree,GAD,LHGDN |
| umls:C0221014 | Reactive systemic amyloidosis | 31 | BeFree,ORPHANET |
| umls:C3536715 | AA amyloidosis | 26 | BeFree |
| umls:C0003873 | Rheumatoid Arthritis | 24 | BeFree,GAD,LHGDN |
| umls:C0031069 | Familial Mediterranean Fever | 15 | BeFree,GAD |
| umls:C0003850 | Arteriosclerosis | 8 | BeFree |
| umls:C0004153 | Atherosclerosis | 8 | BeFree |
| umls:C0268382 | Amyloid nephropathy | 6 | BeFree |
| umls:C0007222 | Cardiovascular Diseases | 5 | BeFree,GAD,LHGDN |
| umls:C0028754 | Obesity | 5 | BeFree |
| umls:C0003864 | Arthritis | 3 | BeFree,LHGDN |
| umls:C0021368 | Inflammation | 2 | LHGDN |
| umls:C0178874 | Tumor Progression | 2 | BeFree |
| umls:C0243026 | Sepsis | 2 | BeFree |
| umls:C0375023 | Respiratory syncytial virus (RSV) infection in conditions classified elsewhere and of unspecified site | 2 | BeFree |
| umls:C1956346 | Coronary Artery Disease | 2 | BeFree |
| umls:C2239176 | Liver carcinoma | 2 | BeFree |
| umls:C2931822 | Nasopharyngeal carcinoma | 2 | BeFree |
| umls:C3714514 | Infection | 2 | LHGDN |
| umls:C0002395 | Alzheimer's Disease | 1 | GAD |
| umls:C0004623 | Bacterial Infections | 1 | BeFree |
| umls:C0007102 | Malignant tumor of colon | 1 | BeFree |
| umls:C0009324 | Ulcerative Colitis | 1 | BeFree |
| umls:C0009375 | Colonic Neoplasms | 1 | LHGDN |
| umls:C0010054 | Coronary Arteriosclerosis | 1 | BeFree |
| umls:C0010068 | Coronary heart disease | 1 | BeFree |
| umls:C0011616 | Contact Dermatitis | 1 | CTD_human |
| umls:C0011881 | Diabetic Nephropathy | 1 | BeFree |
| umls:C0011991 | Diarrhea | 1 | BeFree |
| umls:C0015625 | Fanconi Anemia | 1 | BeFree |
| umls:C0015695 | Fatty Liver | 1 | BeFree |
| umls:C0017601 | Glaucoma | 1 | BeFree |
| umls:C0019061 | Hemolytic-Uremic Syndrome | 1 | BeFree |
| umls:C0019196 | Hepatitis C | 1 | LHGDN |
| umls:C0020473 | Hyperlipidemia | 1 | BeFree |
| umls:C0020507 | Hyperplasia | 1 | LHGDN |
| umls:C0020538 | Hypertensive disease | 1 | GAD |
| umls:C0022661 | Kidney Failure, Chronic | 1 | BeFree |
| umls:C0027627 | Neoplasm Metastasis | 1 | BeFree |
| umls:C0027819 | Neuroblastoma | 1 | BeFree |
| umls:C0029408 | Degenerative polyarthritis | 1 | BeFree |
| umls:C0033860 | Psoriasis | 1 | BeFree |
| umls:C0035435 | Rheumatism | 1 | BeFree |
| umls:C0036983 | Septic Shock | 1 | LHGDN |
| umls:C0038013 | Ankylosing spondylitis | 1 | LHGDN |
| umls:C0079772 | T-Cell Lymphoma | 1 | BeFree |
| umls:C0151594 | Hemorrhagic diarrhea | 1 | BeFree |
| umls:C0153392 | Malignant neoplasm of nasopharynx | 1 | BeFree |
| umls:C0206669 | Hepatocellular Adenoma | 1 | BeFree |
| umls:C0238301 | Cancer of Nasopharynx | 1 | BeFree |
| umls:C0265219 | Miller Dieker syndrome | 1 | BeFree |
| umls:C0268380 | Systemic amyloidosis | 1 | BeFree |
| umls:C0268381 | Primary amyloidosis | 1 | BeFree |
| umls:C0281479 | Primary Systemic Amyloidosis | 1 | BeFree |
| umls:C0302810 | Uremia syndrome | 1 | BeFree |
| umls:C0699790 | Colon Carcinoma | 1 | BeFree |
| umls:C0700095 | Central neuroblastoma | 1 | BeFree |
| umls:C0740394 | Hyperuricemia | 1 | BeFree |
| umls:C0993582 | Arthritis, Experimental | 1 | CTD_human |
| umls:C1270972 | Mild cognitive disorder | 1 | BeFree |
| umls:C2316212 | Cryopyrin-Associated Periodic Syndromes | 1 | BeFree |
| umls:C2936349 | Plaque, Amyloid | 1 | BeFree |
| umls:C2939462 | Immunoglobulin deposition disease | 1 | BeFree |
| umls:C3495559 | Juvenile arthritis | 1 | BeFree |
| umls:C3714757 | Juvenile rheumatoid arthritis | 1 | BeFree |
Copyright 2016-Present - The University of Texas Health Science Center at Houston (UTHealth) Web File Viewing | How to Report, Fraud, Waste and Abuse | State of Texas | Statewide Search | Texas Homeland Security | Site Policies |