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MSR1 Gene

protein-coding   GIFtS: 66
GCID: GC08M016009

Macrophage Scavenger Receptor 1

  See MSR1-related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Macrophage Scavenger Receptor 11 2     Macrophage Scavenger Receptor Type III2
SCARA12 3 5     Macrophage Scavenger Receptor Types I And II2
Macrophage Acetylated LDL Receptor I And II2 3     phSR12
Scavenger Receptor Class A Member 12 3     phSR22
SRA2 5     Scavenger Receptor Class A, Member 12
CD2042     CD204 Antigen3
SR-A2     

External Ids:    HGNC: 73761   Entrez Gene: 44812   Ensembl: ENSG000000389457   OMIM: 1536225   UniProtKB: P217573   
ORGUL members:         

Export aliases for MSR1 gene to outside databases

Previous GC identifers: GC08M015739 GC08M015926 GC08M015975 GC08M014509


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for MSR1 Gene:
This gene encodes the class A macrophage scavenger receptors, which include three different types (1, 2, 3)
generated by alternative splicing of this gene. These receptors or isoforms are macrophage-specific trimeric
integral membrane glycoproteins and have been implicated in many macrophage-associated physiological and
pathological processes including atherosclerosis, Alzheimer's disease, and host defense. The isoforms type 1 and
type 2 are functional receptors and are able to mediate the endocytosis of modified low density lipoproteins
(LDLs). The isoform type 3 does not internalize modified LDL (acetyl-LDL) despite having the domain shown to
mediate this function in the types 1 and 2 isoforms. It has an altered intracellular processing and is trapped
within the endoplasmic reticulum, making it unable to perform endocytosis. The isoform type 3 can inhibit the
function of isoforms type 1 and type 2 when co-expressed, indicating a dominant negative effect and suggesting a
mechanism for regulation of scavenger receptor activity in macrophages. (provided by RefSeq, Jul 2008)

GeneCards Summary for MSR1 Gene:
MSR1 (macrophage scavenger receptor 1) is a protein-coding gene. Diseases associated with MSR1 include necrobiotic xanthogranuloma, and familial prostate cancer. GO annotations related to this gene include low-density lipoprotein particle binding and scavenger receptor activity. An important paralog of this gene is MARCO.

UniProtKB/Swiss-Prot: MSRE_HUMAN, P21757
Function: Membrane glycoproteins implicated in the pathologic deposition of cholesterol in arterial walls during
atherogenesis. Two types of receptor subunits exist. These receptors mediate the endocytosis of a diverse group
of macromolecules, including modified low density lipoproteins (LDL). Isoform III does not internalize acetylated
LDL

Gene Wiki entry for MSR1 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000008.10  NC_018919.2  NT_167187.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the MSR1 gene promoter:
         AP-1   ATF-2   c-Jun   GATA-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidMSR1 promoter sequence
   Search Chromatin IP Primers for MSR1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat MSR1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 8p22   Ensembl cytogenetic band:  8p22   HGNC cytogenetic band: 8p22

MSR1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
MSR1 gene location

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08M016009:  view genomic region     (about GC identifiers)

Start:
15,965,387 bp from pter      End:
16,424,999 bp from pter
Size:
459,613 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: MSRE_HUMAN, P21757 (See protein sequence)
Recommended Name: Macrophage scavenger receptor types I and II  
Size: 451 amino acids; 49762 Da
Subunit: Homotrimer
Secondary accessions: D3DSP3 O60505 P21759 Q45F10
Alternative splicing: 3 isoforms:  P21757-1   P21757-2   P21757-3   (May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay)

Explore the universe of human proteins at neXtProt for MSR1: NX_P21757

Explore proteomics data for MSR1 at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn82, Asn102, Asn143, Asn184, Asn221, Asn249, Asn267
  • Modification sites at PhosphoSitePlus

  • See MSR1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_002436.1  NP_619729.1  NP_619730.1  

    ENSEMBL proteins: 
     ENSP00000262101   ENSP00000405453   ENSP00000347430   ENSP00000430536   ENSP00000371428  
     ENSP00000428865   ENSP00000427905   ENSP00000429498   ENSP00000262100   ENSP00000444414  
    Reactome Protein details: P21757

    MSR1 Human Recombinant Protein Products:

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    antibodies-online proteins for MSR1 (7 products) 

     
    antibodies-online peptides for MSR1

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    antibodies-online antibodies for MSR1 (78 products) 

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    CD: CD molecules

    4 InterPro protein domains:
     IPR001190 SRCR
     IPR003543 Macro_scav_rcpt
     IPR017448 Srcr_rcpt-rel
     IPR008160 Collagen

    Graphical View of Domain Structure for InterPro Entry P21757

    ProtoNet protein and cluster: P21757

    4 Blocks protein domains:
    IPB001190 Speract/scavenger receptor
    IPB003543 Macrophage scavenger receptor signature
    IPB008160 Collagen triple helix repeat
    IPB008161 Collagen helix repeat


    UniProtKB/Swiss-Prot: MSRE_HUMAN, P21757
    Similarity: Contains 1 collagen-like domain
    Similarity: Contains 1 SRCR domain


    Find genes that share domains with MSR1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: MSRE_HUMAN, P21757
    Function: Membrane glycoproteins implicated in the pathologic deposition of cholesterol in arterial walls during
    atherogenesis. Two types of receptor subunits exist. These receptors mediate the endocytosis of a diverse group
    of macromolecules, including modified low density lipoproteins (LDL). Isoform III does not internalize acetylated
    LDL

         Genatlas biochemistry entry for MSR1:
    macrophage scavenger receptor 1 (oxidized low density lipoprotein receptor)

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003700sequence-specific DNA binding transcription factor activity ----
    GO:0004871signal transducer activity ----
    GO:0005044scavenger receptor activity IEA--
    GO:0005515protein binding IPI17237231
    GO:0030169low-density lipoprotein particle binding ISS12376530
         
    Find genes that share ontologies with MSR1           About GenesLikeMe


    Phenotypes:
         7 MGI mutant phenotypes (inferred from 1 allele(MGI details for Msr1):
     cardiovascular system  hematopoietic system  homeostasis/metabolism  immune system  mortality/aging 
     nervous system  other 

    Find genes that share phenotypes with MSR1           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Msr1tm1Csk for MSR1

       genOway: Develop your customized and physiologically relevant rodent model for MSR1

    miRNA
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    hsa-miR-579 hsa-let-7d hsa-miR-765 hsa-let-7g hsa-let-7a hsa-miR-98 hsa-miR-433 hsa-miR-203
    SwitchGear 3'UTR luciferase reporter plasmidMSR1 3' UTR sequence
    Inhib. RNA
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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    MSRE_HUMAN, P21757: Membrane; Single-pass type II membrane protein
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane4
    extracellular3
    cytosol2
    mitochondrion1
    nucleus1
    peroxisome1

    Gene Ontology (GO): Selected cellular component terms (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005581collagen IEA--
    GO:0005829cytosol IEA--
    GO:0005886plasma membrane TAS--
    GO:0005887integral component of plasma membrane TAS8093617
    GO:0016020membrane ----

    Find genes that share ontologies with MSR1           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for MSR1 About   (see all 8)  
    See pathways by source

    SuperPathContained pathways About
    1Binding and Uptake of Ligands by Scavenger Receptors
    Binding and Uptake of Ligands by Scavenger Receptors0.53
    Scavenging by Class A Receptors0.00
    2Selected targets of CREB1
    Selected targets of CREB1
    3Selected targets of C EBPbeta
    Selected targets of C EBPbeta
    4Phagosome
    Phagosome
    5Phagocytosis of Microbes
    Phagocytosis of Microbes


    Find genes that share SuperPaths with MSR1           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 R&D Systems Pathway for MSR1
        A-beta Uptake & Degradation

    2 Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for MSR1
        LDL Oxidation in Atherogenesis
    Phagocytosis of Microbes

    1 BioSystems Pathway for MSR1
        AGE/RAGE pathway


    1 Reactome Pathway for MSR1
        Scavenging by Class A Receptors


    1 Kegg Pathway  (Kegg details for MSR1):
        Phagosome

        Pathway & Disease-focused RT2 Profiler PCR Array including MSR1: 
              Atherosclerosis in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for MSR1

    STRING Interaction Network Preview (showing 4 interactants - click image to see more details)

    Selected Interacting proteins for MSR1 (P217571, 3 ENSP000002621014) via UniProtKB, MINT, STRING, and/or I2D (see all 16)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HSPA1AP081073, ENSP000003648024I2D: score=2 STRING: ENSP00000364802
    ENSG00000212866P081073I2D: score=2 
    ENSG00000215328P081073I2D: score=2 
    ENSG00000224501P081073I2D: score=2 
    ENSG00000231555P081073I2D: score=2 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 9):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006355regulation of transcription, DNA-templated ----
    GO:0006898receptor-mediated endocytosis TAS2251254
    GO:0007165signal transduction ----
    GO:0010744positive regulation of macrophage derived foam cell differentiation ISS12376530
    GO:0010886positive regulation of cholesterol storage ISS--

    Find genes that share ontologies with MSR1           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for MSR1 (MSRE)

    Selected Novoseek inferred chemical compound relationships for MSR1 gene (see all 18)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    fucoidan 73 12 19351958 (2), 15330174 (2), 12488451 (2), 20067767 (1) (see all 7)
    cholesterol ester 65 6 19644050 (2), 19699207 (1), 16172428 (1), 12488451 (1)
    inosine monophosphate 54.9 3 10998066 (1), 12473645 (1)
    cholesterol 44.1 26 15951431 (2), 11116059 (2), 10706585 (2), 14661091 (1) (see all 11)
    alpha tocopherol 34.3 5 10381284 (2), 11290823 (1), 12559471 (1), 12023009 (1)
    lipid 27.5 14 11116059 (2), 19049904 (2), 12379907 (1), 16186421 (1) (see all 7)
    12-o-tetradecanoylphorbol 13-acetate 22.1 1 18806314 (1)
    vitamin-e 5.22 1 12559471 (1)
    mannose 4.13 1 15330174 (1)
    oxygen 0 7 9743233 (2), 11238031 (1), 12379907 (1), 15556945 (1) (see all 5)



    Find genes that share compounds with MSR1           About GenesLikeMe



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for MSR1 gene (3 alternative transcripts): 
    NM_002445.3  NM_138715.2  NM_138716.2  

    Unigene Cluster for MSR1:

    Macrophage scavenger receptor 1
    Hs.147635  [show with all ESTs]
    Unigene Representative Sequence: NM_138715
    15 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000262101 ENST00000445506 ENST00000355282 ENST00000522672 ENST00000381998(uc003wxb.3 uc011kxz.2)
    ENST00000519060 ENST00000518960 ENST00000518026 ENST00000521876 ENST00000518343
    ENST00000517522 ENST00000520846 ENST00000522130 ENST00000350896(uc010lsu.3 uc003wwz.3 uc003wxa.3)
    ENST00000536385
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    hsa-miR-579 hsa-let-7d hsa-miR-765 hsa-let-7g hsa-let-7a hsa-miR-98 hsa-miR-433 hsa-miR-203
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    Additional mRNA sequence: 

    AF037351.1 AK293217.1 AK293409.1 BC063878.1 D13264.1 D13265.1 D90187.1 D90188.1 

    8 DOTS entries:

    DT.311809  DT.311810  DT.97788471  DT.100813452  DT.95362130  DT.75101110  DT.86846121  DT.95362129 

    Selected AceView cDNA sequences (see all 49):

    NM_138716 AI342012 NM_138715 AA933064 AA569336 AF037351 BQ011224 D90187 
    BF850824 AA489759 AA305746 D90188 CD365565 NM_002445 BG483897 AI299239 
    BG163787 CD366801 BX496563 AV733201 CD367626 D13264 BF063420 T63943 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for MSR1    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b
    SP1:                                                                    -                     
    SP2:                                                                                          
    SP3:                                                                    -     -               
    SP4:                                                                                          


    ECgene alternative splicing isoforms for MSR1

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    MSR1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TTAACACCTA
    MSR1 Expression
    About this image


    MSR1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 6) fully expand
     
     Blood (Cardiovascular System)    fully expand to see all 2 entries
             Monocytes Peripheral Blood
     
     Heart (Cardiovascular System)
             Cardiac Fibroblasts Myocardium
     
     Fibroblasts
             Cardiac Fibroblasts Myocardium
     
     NULL (Uncategorized)
             Endoderm progenitor-like cells
     
     Liver (Hepatobiliary System)
             Periportal Hepatocytes Liver Lobule
    MSR1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    MSR1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.147635

    UniProtKB/Swiss-Prot: MSRE_HUMAN, P21757
    Tissue specificity: Isoform I, isoform II and isoform III are expressed in monocyte-derived macrophages

        Pathway & Disease-focused RT2 Profiler PCR Array including MSR1: 
              Atherosclerosis in human mouse rat

    Primer
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    In Situ
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for MSR1

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of chordates.

    Orthologs for MSR1 gene from Selected species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Msr11 , 5 macrophage scavenger receptor 11, 5 78(n)1
    73.02(a)1
      8 (23.89 cM)5
    202881  NM_001113326.11  NP_001106797.11 
     395817005 
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia msr11 macrophage scavenger receptor 1 53.95(n)
    42.54(a)
      100494467  XM_002942348.2  XP_002942394.2 
    zebrafish
    (Danio rerio)
    Actinopterygii CABZ01112729.16
    Uncharacterized protein
    12(a)
    many ↔ many
    11(46318274-46326453) ENSDARG00000090856


    ENSEMBL Gene Tree for MSR1 (if available)
    TreeFam Gene Tree for MSR1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for MSR1 gene
    MARCO2  SCARA52  
    15 SIMAP similar genes for MSR1 using alignment to 7 protein entries:     MSRE_HUMAN (see all proteins):
    LGALS3BP    COL1A1    COL4A6    COL6A6    COL13A1    COLEC11
    SCARA5    COL21A1    COL4A3    COL17A1    COL4A1    COL6A5
    COL3A1    COL14A1    COL7A1

    Find genes that share paralogs with MSR1           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for MSR1 (see all 2752)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 8 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs413417481,2
    C,Fpathogenic116267760(+) TNCTCA/C/GTGGAC 6 R * stg15NA EU 5908
    rs725523871,2,,4
    C,Fpathogenic116281244(-) CAATAG/TMTGAA 6 D Y mis17Minor allele frequency- T:0.01MN CSA NA 4954
    rs341340311,2
    C,F--14509715(-) CAAAT-/CAAAAC 2 -- ds50016Minor allele frequency- C:0.36NS CSA 182
    rs762140691,2
    C--14509715(+) GTTTTA/G/TATTTG 2 -- ds50011CSA 1
    rs360316601,2
    C,F--14511225(-) GGGGGC/G/TGGGGG 4 -- ut317NS NA 186
    rs349733111,2
    F--14511226(-) CGGGGG/TGGGGG 2 -- ut315Minor allele frequency- T:0.07NS 180
    rs1995116221,2
    C--14525585(-) AATGGA/GAAAAA 2 -- int10--------
    rs802822051,2
    C--14536587(-) AGAGAC/GAGATG 2 -- int11Minor allele frequency- G:0.00NA 2
    rs58896351,2
    C--14568361(+) actaaT/-ttttt 3 -- int1 trp31Minor allele frequency- -:0.50CSA 2
    rs58896361,2
    C--14568973(+) GGAGT-/ACACACA 3 -- int10--------

    HapMap Linkage Disequilibrium report for MSR1 (15965387 - 16215387 bp, first 250kb of MSR1)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for MSR1 (see all 21):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2736661CNV Deletion23290073
    esv3448CNV Deletion18987735
    esv2668117CNV Deletion23128226
    esv2736663CNV Deletion23290073
    esv2736664CNV Deletion23290073
    nsv512943CNV Insertion21212237
    esv269479CNV Insertion20981092
    dgv249e55CNV Loss17911159
    nsv520688CNV Loss19592680
    nsv519153CNV Loss19592680

    Human Gene Mutation Database (HGMD): MSR1
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing MSR1
    DNA2.0 Custom Variant and Variant Library Synthesis for MSR1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 153622   
    OMIM disorders: 176807  614266  
    UniProtKB/Swiss-Prot: MSRE_HUMAN, P21757
  • Prostate cancer (PC) [MIM:176807]: A malignancy originating in tissues of the prostate. Most prostate
    cancers are adenocarcinomas that develop in the acini of the prostatic ducts. Other rare histopathologic types of
    prostate cancer that occur in approximately 5% of patients include small cell carcinoma, mucinous carcinoma,
    prostatic ductal carcinoma, transitional cell carcinoma, squamous cell carcinoma, basal cell carcinoma, adenoid
    cystic carcinoma (basaloid), signet-ring cell carcinoma and neuroendocrine carcinoma. Note=The disease may be
    caused by mutations affecting the gene represented in this entry. MSR1 variants may play a role in susceptibility
    to prostate cancer. MSR1 variants have been found in individuals with prostate cancer and co-segregate with the
    disease in some families
  • Barrett esophagus (BE) [MIM:614266]: A condition characterized by a metaplastic change in which normal
    esophageal squamous epithelium is replaced by a columnar and intestinal-type epithelium. Patients with Barrett
    esophagus have an increased risk of esophageal adenocarcinoma. The main cause of Barrett esophagus is
    gastroesophageal reflux. The retrograde movement of acid and bile salts from the stomach into the esophagus
    causes prolonged injury to the esophageal epithelium and induces chronic esophagitis, which in turn is believed
    to trigger the pathologic changes. Note=The disease may be caused by mutations affecting the gene represented in
    this entry. Genetic variants in MSR1 have been found in individuals with Barrett esophagus and are thought to
    contribute to disease susceptibility

  • 6 diseases for MSR1:    
    About MalaCards
    necrobiotic xanthogranuloma    familial prostate cancer    barrett esophagus/esophageal adenocarcinoma    prostate cancer, progression and metastasis of
    atherosclerosis    prostate cancer

    1 disease from the University of Copenhagen DISEASES database for MSR1:
    Prostate cancer

    Find genes that share disorders with MSR1           About GenesLikeMe

    Selected Novoseek inferred disease relationships for MSR1 gene (see all 17)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    atherosclerosis 64.8 24 19715475 (5), 10937358 (4), 11677771 (2), 15548472 (1) (see all 13)
    prostate cancer 61.4 102 20086112 (8), 15042613 (5), 18398045 (5), 17768178 (5) (see all 32)
    xanthomatosis 55.6 2 11348881 (1)
    prostatic intraepithelial neoplasia 49.4 1 15026346 (1)
    prostate carcinoma 36.8 1 16114055 (1)
    germ-line mutation 31.1 4 12839931 (3)
    inflammation 26.3 7 18067591 (1), 18566991 (1), 18398045 (1), 19911804 (1) (see all 5)
    somatic mutations 21 1 14695991 (1)
    necrosis 16.6 7 17167049 (1), 20410100 (1), 17709607 (1), 18067591 (1) (see all 6)
    alzheimers disease 9.1 3 9548586 (1), 12379907 (1), 19911804 (1)

    Genetic Association Database (GAD): MSR1
    Human Genome Epidemiology (HuGE) Navigator: MSR1 (37 documents)

    Export disorders for MSR1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for MSR1 gene, integrated from 10 sources (see all 217):
    (articles sorted by number of sources associating them with MSR1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Germline mutations and sequence variants of the macrophage scavenger receptor 1 gene are associated with prostate cancer risk. (PubMed id 12244320)1, 2, 4, 9 Xu J....Meyers D.A. (Nat. Genet. 2002)
    2. Human macrophage scavenger receptors: primary structure, expression, and localization in atherosclerotic lesions. (PubMed id 2251254)1, 2, 3 Matsumoto A....Kodama T. (Proc. Natl. Acad. Sci. U.S.A. 1990)
    3. Single and multivariate associations of MSR1, ELAC2, and RNASEL with prostate cancer in an ethnic diverse cohort of men. (PubMed id 20086112)1, 4, 9 Beuten J....Leach R.J. (amp 2010)
    4. COPD is associated with a macrophage scavenger receptor-1 gene sequence variation. (PubMed id 20081102)1, 4, 9 Ohar J.A....Holian A. (Chest 2010)
    5. Increased risk for atherosclerosis of various macrophage scavenger receptor 1 alleles. (PubMed id 19715475)1, 4, 9 Durst R....Lotan C. (Genet Test Mol Biomarkers 2009)
    6. MSR1 variants and the risks of prostate cancer and benign prostatic hyperplasia: a population-based study in China. (PubMed id 17768178)1, 4, 9 Hsing A.W....Zheng S.L. (Carcinogenesis 2007)
    7. Germ-line alterations in MSR1 gene and prostate cancer risk. (PubMed id 14614006)1, 4, 9 SeppAolAo E.H....Schleutker J. (Clin. Cancer Res. 2003)
    8. Association between genetic polymorphisms of macrophage scavenger receptor 1 gene and risk of prostate cancer in the health professionals follow-up study. (PubMed id 18398045)1, 4, 9 Chen Y.C....Hunter D.J. (amp 2008)
    9. Analysis of the RNASEL/HPC1, and macrophage scavenger receptor 1 in Asian-Indian advanced prostate cancer. (PubMed id 18436282)1, 4, 9 Rennert H....Rebbeck T.R. (Urology 2008)
    10. Analysis of the macrophage scavenger receptor 1 gene in Swedish hereditary and sporadic prostate cancer. (PubMed id 15042613)1, 4, 9 Lindmark F....GrAPnberg H. (Prostate 2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 4481 HGNC: 7376 AceView: MSR1 Ensembl:ENSG00000038945 euGenes: HUgn4481
    ECgene: MSR1 Kegg: 4481 H-InvDB: MSR1

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for MSR1 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for MSR1 Genetics and Cytogenetics in Oncology and Haematology
    NIEHS-SNPshttp://egp.gs.washington.edu/data/msr1/

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for MSR1 gene:
    Search GeneIP for patents involving MSR1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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