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| TissGeneSummary for MSR1 |
 Gene summary |
| Basic gene information | Gene symbol | MSR1 |
| Gene name | macrophage scavenger receptor 1 | |
| Synonyms | CD204|SCARA1|SR-A|SRA|phSR1|phSR2 | |
| Cytomap | UCSC genome browser: 8p22 | |
| Type of gene | protein-coding | |
| RefGenes | NM_002445.3, NM_138715.2,NM_138716.2, | |
| Description | macrophage acetylated LDL receptor I and IImacrophage scavenger receptor type IIImacrophage scavenger receptor types I and IIscavenger receptor class A member 1scavenger receptor class A, member 1 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 153622 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000038945 | ||
| HPRD : 01092 | ||
| Vega : OTTHUMG00000094809 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_MSR1 | |
| BioGPS: 4481 | ||
| Pathway | NCI Pathway Interaction Database: MSR1 | |
| KEGG: MSR1 | ||
| REACTOME: MSR1 | ||
| Pathway Commons: MSR1 | ||
| Context | iHOP: MSR1 | |
| ligand binding site mutation search in PubMed: MSR1 | ||
| UCL Cancer Institute: MSR1 | ||
| 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) | KidneyLung | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | KIRC,KIRP,KICHLUAD,LUSC | |
| Reference showing the relevant tissue of MSR1 | ||
| 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 |
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| TissGeneExp for MSR1 |
| 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) |
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| 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. |
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| 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 |
| STAD | 0.282289302 | -1.554182573 | 1.836471875 | 4.58E-07 | 8.82E-06 |
| KIRP | 0.928645552 | -1.007248198 | 1.93589375 | 5.76E-09 | 4.60E-08 |
| LUSC | 0.801185748 | 4.083699474 | -3.282513725 | 1.44E-21 | 2.12E-20 |
| KIRC | 1.878602497 | -0.543036392 | 2.421638889 | 1.26E-25 | 1.56E-24 |
| BRCA | 1.392125377 | 0.213585026 | 1.178540351 | 2.95E-14 | 1.46E-13 |
| LUAD | 1.751971414 | 4.123102449 | -2.371131034 | 9.88E-17 | 1.20E-15 |
| HNSC | -0.663574215 | -1.693385843 | 1.029811628 | 0.000984 | 0.003322714 |
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| TissGene-miRNA for MSR1 |
| 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 MSR1 |
| TissGeneSNV for MSR1 |
| 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.G101E | SKCM | 3 |
| p.E360K | SKCM | 3 |
| p.G361E | SKCM | 2 |
| p.P346S | SKCM | 2 |
| p.G341R | SKCM | 2 |
| p.E337K | SKCM | 2 |
| p.H352Y | SKCM | 2 |
| p.G327E | SKCM | 2 |
| p.G101R | SKCM | 2 |
| p.E105K | SKCM | 2 |
| p.P326S | READ | 1 |
| p.W371R | STAD | 1 |
| p.G357D | ESCA | 1 |
| p.S179F | SKCM | 1 |
| p.S164F | SKCM | 1 |
| p.D15H | CESC | 1 |
| p.L67I | LUAD | 1 |
| p.R124I | STAD | 1 |
| p.E106K | SKCM | 1 |
| p.K100N | HNSC | 1 |
| p.G315E | SKCM | 1 |
| p.P411L | LIHC | 1 |
| p.L42F | SKCM | 1 |
| p.D154G | HNSC | 1 |
| p.G69V | LUAD | 1 |
| p.S262A | BLCA | 1 |
| p.G333S | SKCM | 1 |
| p.P66S | SKCM | 1 |
| p.S316R | STAD | 1 |
| p.I431S | STAD | 1 |
| p.E195D | UCEC | 1 |
| p.I353V | STAD | 1 |
| p.R284* | UCEC | 1 |
| p.Q272X | SKCM | 1 |
| p.D189N | SKCM | 1 |
| p.P429Q | LUSC | 1 |
| p.E112X | COAD | 1 |
| p.P296L | SKCM | 1 |
| p.E280K | SKCM | 1 |
| p.R396H | GBM | 1 |
| p.E365* | STAD | 1 |
| p.E307Q | LUSC | 1 |
| p.R284* | SKCM | 1 |
| p.E19K | SKCM | 1 |
| p.Q142R | SKCM | 1 |
| p.L274V | GBM | 1 |
| p.E195X | COAD | 1 |
| p.W78X | LGG | 1 |
| p.D258Y | STAD | 1 |
| p.D283Y | COAD | 1 |
| p.T88I | PAAD | 1 |
| p.S104N | SKCM | 1 |
| p.G69* | LUAD | 1 |
| p.P34L | STAD | 1 |
| p.K200T | STAD | 1 |
| p.E232Q | LUAD | 1 |
| p.P36S | SKCM | 1 |
| p.P302L | CESC | 1 |
| p.A30T | SKCM | 1 |
| p.A73T | SKCM | 1 |
| p.V399M | COAD | 1 |
| p.P302L | SKCM | 1 |
| p.R317* | SKCM | 1 |
| p.G406E | SKCM | 1 |
| p.T98M | ESCA | 1 |
| p.T264N | KIRC | 1 |
| p.R317X | SKCM | 1 |
| p.E105K | COAD | 1 |
| p.H235R | STAD | 1 |
| p.G312D | SKCM | 1 |
| p.G347D | SKCM | 1 |
| p.P298S | SKCM | 1 |
| p.V387I | PCPG | 1 |
| p.Q407E | KIRC | 1 |
| p.I226T | STAD | 1 |
| p.G217D | LUSC | 1 |
| p.E211K | ESCA | 1 |
| p.L67F | SKCM | 1 |
| p.G392E | SKCM | 1 |
| p.L247R | ESCA | 1 |
| p.L67H | LUAD | 1 |
| p.A90E | LUSC | 1 |
| p.G309E | SKCM | 1 |
| p.Q202* | SKCM | 1 |
| p.G303S | SKCM | 1 |
| p.S368R | BLCA | 1 |
| p.K349N | STAD | 1 |
| p.S164P | STAD | 1 |
| p.R284* | UVM | 1 |
| p.V383F | LUAD | 1 |
| p.S377* | KIRC | 1 |
| p.G288R | SKCM | 1 |
| p.D5N | SKCM | 1 |
| p.S122R | LUSC | 1 |
| p.G294E | HNSC | 1 |
| p.R266K | BLCA | 1 |
| p.R293Q | SKCM | 1 |
| p.G372E | SKCM | 1 |
| p.G309R | SKCM | 1 |
| p.D253N | SKCM | 1 |
| p.R308Q | STAD | 1 |
| p.P66H | HNSC | 1 |
| p.E107K | SKCM | 1 |
| p.R124K | SKCM | 1 |
| p.V60L | KIRC | 1 |
| p.G99R | SKCM | 1 |
| p.M108I | BLCA | 1 |
| p.G119R | LUSC | 1 |
| p.S377L | SKCM | 1 |
| p.P296S | SKCM | 1 |
| p.M108I | SKCM | 1 |
| p.G242R | SKCM | 1 |
| p.E211K | SKCM | 1 |
| p.R351* | SKCM | 1 |
| p.Q202X | SKCM | 1 |
| p.P286S | SKCM | 1 |
| p.G99E | SKCM | 1 |
| p.V396I | UCEC | 1 |
| p.Q43K | LUAD | 1 |
| p.T80M | HNSC | 1 |
| p.S20Y | BRCA | 1 |
| p.Q272* | SKCM | 1 |
| p.K50N | CESC | 1 |
| p.S86G | SKCM | 1 |
| p.L97F | UCEC | 1 |
| p.W78* | LGG | 1 |
| p.H359Q | HNSC | 1 |
| p.E217K | SKCM | 1 |
| p.N152I | LUSC | 1 |
| p.K230N | SKCM | 1 |
| p.P296L | GBM | 1 |
| p.E260K | STAD | 1 |
| p.R236H | GBM | 1 |
| p.D92N | SKCM | 1 |
| p.D103Y | STAD | 1 |
| p.G330R | SKCM | 1 |
| p.P346L | SKCM | 1 |
| p.L270I | SKCM | 1 |
| p.G339R | LUAD | 1 |
| p.S39N | UCEC | 1 |
| p.A51T | ACC | 1 |
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| TissGeneCNV for MSR1 |
| 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 MSR1 |
| 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 | FusionScan | BRCA | TCGA-BH-A202-01A | KAT6A-MSR1 | CDS-5'UTR | chr8:41905895 | chr8:16035501 |
| TCGAfusionPortal | PRADA | BRCA | TCGA-BH-A202-01A | KAT6A-MSR1 | CDS-5UTR | Chr8:41905896 | Chr8:16035501 |
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| TissGeneNet for MSR1 |
| 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) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| COAD (tumor) | COAD (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| HNSC (tumor) | HNSC (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| KICH (tumor) | KICH (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| KIRC (tumor) | KIRC (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| KIRP (tumor) | KIRP (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| LIHC (tumor) | LIHC (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| LUAD (tumor) | LUAD (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| LUSC (tumor) | LUSC (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| PRAD (tumor) | PRAD (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| STAD (tumor) | STAD (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| THCA (tumor) | THCA (normal) |
| MSR1, TRAF6, HSPA1A, HOOK3 (tumor) | MSR1, TRAF6, HSPA1A, HOOK3 (normal) |
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| TissGeneProg for MSR1 |
| 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 MSR1 |
| TissGeneDrug for MSR1 |
| 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 MSR1 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0376358 | Malignant neoplasm of prostate | 32 | BeFree,CLINVAR,GAD |
| umls:C0600139 | Prostate carcinoma | 27 | BeFree |
| umls:C0033578 | Prostatic Neoplasms | 8 | CTD_human,LHGDN |
| umls:C2931456 | Prostate cancer, familial | 8 | BeFree,ORPHANET |
| umls:C0596263 | Carcinogenesis | 5 | BeFree |
| umls:C0004153 | Atherosclerosis | 4 | BeFree,GAD |
| umls:C0041228 | African Trypanosomiasis | 4 | BeFree |
| umls:C0238339 | Hereditary pancreatitis | 4 | BeFree |
| umls:C0003850 | Arteriosclerosis | 3 | BeFree |
| umls:C0006142 | Malignant neoplasm of breast | 3 | BeFree |
| umls:C0024117 | Chronic Obstructive Airway Disease | 3 | BeFree,GAD |
| umls:C0242379 | Malignant neoplasm of lung | 3 | BeFree,GAD |
| umls:C0279626 | Squamous cell carcinoma of esophagus | 3 | BeFree |
| umls:C0678222 | Breast Carcinoma | 3 | BeFree |
| umls:C0009375 | Colonic Neoplasms | 2 | LHGDN |
| umls:C0017638 | Glioma | 2 | BeFree |
| umls:C0178874 | Tumor Progression | 2 | BeFree |
| umls:C0684249 | Carcinoma of lung | 2 | BeFree |
| umls:C0948089 | Acute Coronary Syndrome | 2 | BeFree,LHGDN |
| umls:C1318544 | M5b Acute differentiated monocytic leukemia | 2 | BeFree |
| umls:C1704272 | Benign Prostatic Hyperplasia | 2 | BeFree |
| umls:C0002395 | Alzheimer's Disease | 1 | GAD |
| umls:C0004763 | Barrett Esophagus | 1 | BeFree |
| umls:C0005684 | Malignant neoplasm of urinary bladder | 1 | GAD |
| umls:C0007222 | Cardiovascular Diseases | 1 | GAD |
| umls:C0011860 | Diabetes Mellitus, Non-Insulin-Dependent | 1 | GAD |
| umls:C0017661 | IGA Glomerulonephritis | 1 | CTD_human |
| umls:C0022661 | Kidney Failure, Chronic | 1 | CTD_human |
| umls:C0023418 | leukemia | 1 | BeFree |
| umls:C0023449 | Acute lymphocytic leukemia | 1 | BeFree |
| umls:C0023465 | Acute monocytic leukemia | 1 | BeFree |
| umls:C0023473 | Myeloid Leukemia, Chronic | 1 | BeFree |
| umls:C0023903 | Liver neoplasms | 1 | BeFree |
| umls:C0029925 | Ovarian Carcinoma | 1 | BeFree |
| umls:C0034069 | Pulmonary Fibrosis | 1 | BeFree |
| umls:C0040336 | Tobacco Use Disorder | 1 | GAD |
| umls:C0271650 | Impaired glucose tolerance | 1 | BeFree |
| umls:C0279628 | Adenocarcinoma Of Esophagus | 1 | BeFree |
| umls:C0280280 | stage, prostate cancer | 1 | BeFree |
| umls:C0598894 | Monocytic leukemia | 1 | BeFree |
| umls:C0730607 | Severe chronic obstructive pulmonary disease | 1 | BeFree |
| umls:C0851980 | Peritoneal infections | 1 | BeFree |
| umls:C1140680 | Malignant neoplasm of ovary | 1 | BeFree |
| umls:C1800706 | Idiopathic Pulmonary Fibrosis | 1 | BeFree |
| umls:C1956346 | Coronary Artery Disease | 1 | BeFree |
| umls:C1961102 | Precursor Cell Lymphoblastic Leukemia Lymphoma | 1 | BeFree |
| umls:C3641618 | Hereditary Prostate Carcinoma | 1 | BeFree |
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