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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

APCS Gene

protein-coding   GIFtS: 64
GCID: GC01P159557

Amyloid P Component, Serum
Alzheimer's & Parkinson's Diseases Congress
  20 related diseases
at
MalaCards
 

Aliases
for APCS gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section
Aliases
Amyloid P Component, Serum1 2
9.5S Alpha-1-Glycoprotein1 2 3
SAP2 3 5
pentaxin-related1 2
PTX22 3
Serum Amyloid P-Component2

External Ids:    HGNC: 5841   Entrez Gene: 3252   Ensembl: ENSG000001327037   OMIM: 1047705   UniProtKB: P027433   

Export aliases for APCS gene to outside databases

Previous GC identifers: GC01P157349 GC01P155289 GC01P156335 GC01P156774 GC01P156370 GC01P157824 GC01P130914


Summaries
for APCS gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for APCS Gene:
The protein encoded by this gene is a glycoprotein, belonging to the pentraxin family of proteins, which has a
characteristic pentameric organization. These family members have considerable sequence homology which is thought
to be the result of gene duplication. The binding of the encoded protein to proteins in the pathological amyloid
cross-beta fold suggests its possible role as a chaperone. This protein is also thought to control the
degradation of chromatin. It has been demonstrated that this protein binds to apoptotic cells at an early stage,
which raises the possibility that it is involved in dealing with apoptotic cells in vivo. (provided by RefSeq,
Sep 2008)

GeneCards Summary for APCS Gene: 
APCS (amyloid P component, serum) is a protein-coding gene. Diseases associated with APCS include candida glabrata, and oral candidiasis, and among its related super-pathways are Packaging Of Telomere Ends. GO annotations related to this gene include unfolded protein binding and metal ion binding. An important paralog of this gene is NPTX2.

UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743
Function: Can interact with DNA and histones and may scavenge nuclear material released from damaged circulating
cells. May also function as a calcium-dependent lectin

Gene Wiki entry for APCS (Serum amyloid P component) Gene


Genomic Views
for APCS 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_004487.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the APCS gene promoter:
         Nkx3-1   Nkx3-1 v4   Nkx3-1 v1   STAT5A   NF-E2 p45   Nkx3-1 v2   Zic1   STAT3   Nkx3-1 v3   NF-E2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: APCS promoter sequence
   Search SABiosciences Chromatin IP Primers for APCS

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat APCS


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

Entrez Gene cytogenetic band: 1q21-q23   Ensembl cytogenetic band:  1q23.2   HGNC cytogenetic band: 1q21-q23

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

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P159557:  view genomic region     (about GC identifiers)

Start:
 159,557,615 bp from pter      End:
 159,558,661 bp from pter
Size:
 1,047 bases      Orientation:
 plus strand

Proteins
for APCS gene

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section
UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743 (See protein sequence)
Recommended Name: Serum amyloid P-component precursor  
Size: 223 amino acids; 25387 Da
Cofactor: Binds 2 calcium ions per subunit
Subunit: Homopentamer. Pentaxin (or pentraxin) have a discoid arrangement of 5 non-covalently bound subunits
Subcellular location: Secreted
Mass spectrometry: Mass=25462.5; Mass_error=1.1; Method=Electrospray; Range=20-223; Source=PubMed:8202534;
Mass spectrometry: Mass=25463; Mass_error=3; Method=MALDI; Range=20-223; Source=PubMed:15174148;
Mass spectrometry: Mass=1285.78; Method=MALDI; Range=213-223; Source=PubMed:15174148;
Mass spectrometry: Mass=1186.71; Method=MALDI; Range=213-222; Source=PubMed:15174148;
6/9 PDB 3D structures from and Proteopedia for APCS (see all 9):
1GYK (3D)        1LGN (3D)        1SAC (3D)        2A3W (3D)        2A3X (3D)        2A3Y (3D)    

Explore the universe of human proteins at neXtProt for APCS: NX_P02743

Explore proteomics data for APCS at MOPED 

Post-translational modifications:

  • UniProtKB: N-glycosylated with a complex biantennary oligosaccharide chain with a sialic acid at the end (disialo-SAP).
    Monosialo-SAP as well as asioalo-SAP are also detected (PubMed:15174148)
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P02743

    • APCS Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    APCS Protein Expression
    REFSEQ proteins: NP_001630.1  
    ENSEMBL proteins: 
     ENSP00000255040  
    Reactome Protein details: P02743
    Human Recombinant Protein Products for APCS: 
    Browse Purified and Recombinant Proteins at EMD Millipore
    R&D Systems Recombinant & Natural Proteins for APCS (Pentraxin 2/SAP)
    Browse recombinant and purified proteins available from Enzo Life Sciences
    OriGene Purified Protein for APCS
    OriGene Protein Over-expression Lysate for APCS
    OriGene MassSpec for APCS 
    OriGene Custom Protein Services for APCS
    GenScript Custom Purified and Recombinant Proteins Services for APCS
    Novus Biologicals APCS Proteins
    Novus Biologicals APCS Lysate
    Sino Biological Recombinant Protein for APCS
    Sino Biological Cell Lysate for APCS 
    ProSpec Recombinant Protein for APCS
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0005615extracellular space IDA--
    GO:0031012colocalizes with extracellular matrix IDA--
    GO:0043234protein complex IEA--

    APCS for ontologies           About GeneDecksing



    APCS Antibody Products: 
    EMD Millipore Mono- and Polyclonal Antibodies for the study of APCS
    R&D Systems Antibodies for APCS (Pentraxin 2/SAP)
    OriGene Antibodies for APCS
    OriGene Custom Antibody Services for APCS
    GenScript Superior Antibodies for APCS
    Novus Biologicals APCS Antibodies
    Abcam antibodies for APCS
    Browse Antibodies at Cloud-Clone Corp. 
    ThermoFisher Antibodies for APCS
    LSBio Antibodies in human, mouse, rat for APCS 

    Assay Products for APCS: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for APCS
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for APCS
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp. 
    Browse CLIAs at Cloud-Clone Corp.

    Protein Domains /
    Families
    for APCS gene

    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    		 3 InterPro protein domains:
     IPR013320 ConA-like_subgrp
     IPR001759 Pentaxin
     IPR008985 ConA-like_lec_gl_sf

    Graphical View of Domain Structure for InterPro Entry P02743

    ProtoNet protein and cluster: P02743

    1 Blocks protein domain: IPB001759 Pentaxin

    UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743
    Similarity: Belongs to the pentaxin family
    Similarity: Contains 1 pentaxin domain


    APCS for domains           About GeneDecksing


    Function
    for APCS gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section
    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SAMP_HUMAN, P02743
    Function: Can interact with DNA and histones and may scavenge nuclear material released from damaged circulating
    cells. May also function as a calcium-dependent lectin

         Genatlas biochemistry entry for APCS:
    amyloid P component,serum,pentaxin (pentraxin) family

         Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0046872metal ion binding IEA--
    GO:0051082unfolded protein binding TAS10812074
         
    APCS for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for APCS:
     Decreased viability of wild-ty 

         5 MGI mutant phenotypes (inferred from 2 alleles) (MGI details for Apcs):
     hematopoietic system  immune system  mortality/aging  other  renal/urinary system 

    APCS for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-outs for APCS: Apcstm1Mpe Apcstm1Smae

       inGenious Targeting Laboratory - Custom generated mouse model solutions for APCS 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for APCS

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for APCS 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for APCS 

    miRNA
    Products:            		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat APCS
    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate APCS
    SwitchGear 3'UTR luciferase reporter plasmid: APCS 3' UTR sequence
    Inhib. RNA
    Products:            		Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for APCS
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat APCS

    Gene Editing
    Products:    		DNA2.0 Custom Protein Engineering Service for APCS
    Sirion Biotech Customized adenovirus for overexpression of APCS

    Clone
    Products:             		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for APCS (see all 7)
    OriGene ORF clones in mouse, rat for APCS
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: APCS (NM_001639)
    Sino Biological Human cDNA Clone for APCS
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for APCS
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat APCS
    Sirion Biotech Customized lentivirus for stable overexpression of APCS 
                         Customized lentivirus expression plasmids for stable overexpression of APCS 

    Cell Line
    Products:             		GenScript Custom overexpressing Cell Line Services for APCS
    Search LifeMap BioReagents cell lines for APCS
    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for APCS


    Pathways & Interactions
    for APCS gene

    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for APCS About                                                                                                See pathways by source

    SuperPathContained pathways About
    1Packaging Of Telomere Ends
    		Amyloids0.41
    2Selected targets of C/EBPbeta
    		Selected targets of C/EBPbeta
    3Disease
    		Disease

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 EMD Millipore Pathway for APCS
        Selected targets of C/EBPbeta



    2        Reactome Pathways for APCS
        Amyloids
    Disease



    APCS for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for APCS

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/41 Interacting proteins for APCS (P027432, 3 ENSP000002550404) via UniProtKB, MINT, STRING, and/or I2D (see all 41)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GOT2P005052, 3, ENSP000002452064MINT-8249003 I2D: score=2 STRING: ENSP00000245206
    HES1Q144692, 3, ENSP000002324244MINT-8249014 I2D: score=2 STRING: ENSP00000232424
    C4BPAP040033, ENSP000003560374I2D: score=2 STRING: ENSP00000356037
    CALUO438523, ENSP000002493644I2D: score=2 STRING: ENSP00000249364
    FCGR3AP086373, ENSP000003569464I2D: score=2 STRING: ENSP00000356946
    About this table

    Gene Ontology (GO): 4 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006457protein folding TAS10812074
    GO:0006461protein complex assembly ----
    GO:0006953acute-phase response TAS2987268
    GO:0051131chaperone-mediated protein complex assembly TAS10972085

    APCS for ontologies           About GeneDecksing



    Drugs & Compounds
    for APCS gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    APCS for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for APCS (SAMP)

    1 HMDB Compound for APCS    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--

    3 DrugBank Compounds for APCS    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    Methyl 4,6-O-[(1r)-1-Carboxyethylidene]-Beta-D-Galactopyranoside-- --target--17139284 17016423
    BIS-1,2-{[(Z)-2-CARBOXY-2-METHYL-1,3-DIOXANE]-5-YLOXYCARBAMOYL}-ETHANE-- --target--10592235
    BIS-1,2-{[(Z)-2CARBOXY-2-METHYL-1,3-DIOXANE]-5-YLOXYCARBONYL}-PIPERAZINE-- --target--10592235

    8 Novoseek inferred chemical compound relationships for APCS gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    saquinavir 67.7 1 12182226 (1)
    indinavir 64.1 2 12182226 (1), 10532286 (1)
    ganglioside 29.7 1 12733985 (1)
    phosphatidylethanolamine 26 5 11441067 (3), 8999915 (1)
    ceramide 25.2 1 12733985 (1)
    phospholipid 23.1 2 11441067 (1), 12609906 (1)
    anti-fungal 19.7 1 10450995 (1)
    lipid 0 1 15530444 (1)

    Search CenterWatch for drugs/clinical trials and news about APCS / SAMP

    Transcripts
    for APCS gene

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for APCS gene: 
    NM_001639.3  

    Unigene Cluster for APCS:

    Amyloid P component, serum
    Hs.507080  [show with all ESTs]
    Unigene Representative Sequence: BG533315
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000255040(uc001ftv.3)

    miRNA
    Products:             		 QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat APCS
    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate APCS
    SwitchGear 3'UTR luciferase reporter plasmid: APCS 3' UTR sequence
    Inhib. RNA
    Products:             		Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for APCS
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat APCS
    Clone
    Products:             		 OriGene clones in human, mouse for APCS (see all 7)
    OriGene ORF clones in mouse, rat for APCS
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: APCS (NM_001639)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for APCS
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat APCS
    Sirion Biotech Customized lentivirus for stable overexpression of APCS 
                         Customized lentivirus expression plasmids for stable overexpression of APCS 
    Primer
    Products:            		OriGene qPCR primer pairs and template standards for APCS
    OriGene qSTAR qPCR primer pairs in human, mouse for APCS
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat APCS
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat APCS
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat APCS

    Additional mRNA sequence: 

    BC007039.1 BC007058.1 BC070178.1 BT006750.1 CR450313.1 M10944.1 X04608.1 

    3 DOTS entries:

    DT.413275  DT.91827599  DT.92447980 

    24/177 AceView cDNA sequences (see all 177):

    AV659282 C20929 AV659408 CK904372 AV653918 BG618339 BG533315 NM_001639 
    BG562776 BX117499 BF126468 BG617675 BG564245 BG616929 T28676 BG618538 
    AV653702 BC007039 BG617725 BG562502 BG564396 BG618163 BG565555 BG617789 

    GeneLoc Exon Structure


    Expression
    for APCS gene

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    APCS expression in normal human tissues (normalized intensities)      APCS embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGGGACTCTG
    APCS Expression
    About this image


    APCS expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/15 selected tissues (see all 15) fully expand
     
     Liver (Hepatobiliary System)    fully expand to see all 2 entries
             Hepatocytes Liver Lobule
             Human Hepatocyte (HH)   
     
     Testis (Reproductive System)    fully expand to see all 2 entries
             testis ; cells in seminiferus ducts   
     
     Epithelium (Uncategorized)    fully expand to see all 2 entries
             vagina ; squamous epithelial cells   
     
     Spleen (Hematopoietic System)    fully expand to see all 2 entries
             spleen ; cells in white pulp   
     
     Lung (Respiratory System)
             bronchus ; respiratory epithelial cells   

    See APCS Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for APCS

    SOURCE GeneReport for Unigene cluster: Hs.507080

    UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743
    Tissue specificity: Found in serum and urine

        SABiosciences Expression via Pathway-Focused PCR Arrays including APCS: 
              Innate & Adaptive Immune Responses in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Antibacterial Response in human mouse rat

    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for APCS
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat APCS
    QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat APCS
    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat APCS
    In Situ
    Assay Products:     
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for APCS

    Orthologs
    for APCS gene

    (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)
    About This Section
    This gene was present in the common ancestor of chordates.

    Orthologs for APCS gene from 4/10 species (see all 10)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Apcs1 , 5 serum amyloid P-component1, 5 74.02(n)1
    69.37(a)1    		   1 (80.33 cM)5
    202191  NM_011318.21  NP_035448.21 
     1728939625 
    chicken
    (Gallus gallus)    		 Aves CRP1 C-reactive protein, pentraxin-related 56.07(n)
    47.66(a)    		   429786  NM_001039564.1  NP_001034653.1 
    lizard
    (Anolis carolinensis)    		 Reptilia --
    --
    (see all 6)    		 --
    		 43(a)
    42(a)
    (see all 6)    		 many ↔ many
    many ↔ many
    (see all 6)    		 GL343640.1(60469-66673)
    GL343640.1(49346-56006)
    zebrafish
    (Danio rerio)    		 Actinopterygii crp26
    crp76
    (see all 8)    		 C-reactive protein 7
    (see all 8)    		 34(a)
    32(a)
    (see all 8)    		 possible ortholog
    possible ortholog
    (see all 8)    		 24(39585485-39588797)
    24(39640521-39695017)


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

    Paralogs
    for APCS gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for APCS gene
    NPTX22  CRP2  PTX42  NPTX12  NPTXR2  PTX32  
    2 SIMAP similar genes for APCS using alignment to 1 protein entry:     SAMP_HUMAN:
    CRP    MPTX1

    APCS for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for APCS
    PGOHUM00000245032 PGOHUM00000245035


    Genomic Variants
    for APCS gene

    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/147 SNPs in APCS are shown (see all 147)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 1 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    VAR_0358144
    		A breast cancer sample4--see VAR_0358142 G S mis40--------
    VAR_0060544
    		----see VAR_0060542 E G mis40--------
    VAR_0060554
    		----see VAR_0060552 S G mis40--------
    rs1893625971,2
    		--159555892(+) AAGTAC/TGAAAG 1 -- us2k10--------
    rs1808684881,2
    		--159555915(+) GTATAG/TTTGGG 1 -- us2k10--------
    rs28086461,2
    		C,F,A--159555924(+) GGATAT/ATAGAA 1 -- us2k11Minor allele frequency- A:0.41WA 118
    rs353118611,2
    		C--159556051(+) ACTATA/GACCAT 1 -- us2k12Minor allele frequency- G:0.04NA EA 122
    rs1849238581,2
    		--159556080(+) ATTAAC/TGTGGA 1 -- us2k10--------
    rs1477252361,2
    		--159556140(+) CAAGAC/GAGTAT 1 -- us2k10--------
    rs1897673861,2
    		--159556333(+) ATAATC/GCCAAC 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for APCS (159557615 - 159558661 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for APCS: --
    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing APCS
    DNA2.0 Custom Variant and Variant Library Synthesis for APCS

    Disorders / Diseases
    for APCS gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    		 OMIM gene information: 104770    OMIM disorders: --

    UniProtKB/Swiss-Prot: SAMP_HUMAN, P02743
  • Note=SAP is a precursor of amyloid component P which is found in basement membrane and associated with
    amyloid deposits

    • 20 diseases for APCS:    About MalaCards
    candida glabrata    oral candidiasis    carpal tunnel syndrome    candidiasis
    vaginitis    amyloidosis    endocarditis    polyneuropathy
    systemic lupus erythematosus    pulmonary fibrosis    dementia    influenza
    lupus erythematosus    parkinson's disease    atherosclerosis    hepatitis b
    alzheimer's disease    hepatitis    endotheliitis    neuronitis

    3 diseases from the University of Copenhagen DISEASES database for APCS:
    Amyloidosis     Polyneuropathy     Alzheimer's disease

    APCS for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015

    6 Novoseek inferred disease relationships for APCS gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    candidiasis 69.4 3 11556759 (1), 12437091 (1), 17472610 (1)
    oropharyngeal 51.2 1 17472610 (1)
    response acute phase 42.7 1 16380821 (1)
    immunodeficiency 19.8 4 12182226 (1), 10532286 (1), 15770446 (1), 15094164 (1)
    inflammation 19.3 1 17138933 (1)
    aids 16.6 1 10770752 (1)

    Genetic Association Database (GAD): APCS
    Human Genome Epidemiology (HuGE) Navigator: APCS (11 documents)

    Export disorders for APCS gene to outside databases

    Publications
    for APCS gene

    (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)
    About This Section

    PubMed articles for APCS gene, integrated from 9 sources (see all 133):
    (articles sorted by number of sources associating them with APCS)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Human serum amyloid P component. cDNA isolation, complete sequence of pre-serum amyloid P component, and localization of the gene to chromosome 1. (PubMed id 2987268)1, 2, 3 Mantzouranis E.C.... Colten H.R. (1985)
    2. Susceptibility and modifier genes in Portuguese transthyretin V30M amyloid polyneuropathy: complexity in a single-gene disease. (PubMed id 15649951)1, 4, 9 Soares M.L....Buxbaum J.N. (2005)
    3. Integrative predictive model of coronary artery calci fication in atherosclerosis. (PubMed id 19948975)1, 4 McGeachie M....Ramoni M.F. (2009)
    4. Association of polymorphisms in complement component C3 gene with susceptibility to systemic lupus erythematosus. (PubMed id 18174230)1, 4 Miyagawa H....Horiuchi T. (2008)
    5. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
    6. Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry. (PubMed id 16335952)1, 2 Liu T.... Smith R.D. (2005)
    7. Proteomic characterization of novel serum amyloid P component variants from human plasma and urine. (PubMed id 15174148)1, 2 Kiernan U.A.... Nelson R.W. (2004)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    9. Crystal structure of a decameric complex of human serum amyloid P component with bound dAMP. (PubMed id 9217261)1, 2 Hohenester E.... Wood S.P. (1997)
    10. Human serum amyloid P component is an invariant constituent of amyloid deposits and has a uniquely homogeneous glycostructure. (PubMed id 8202534)1, 2 Pepys M.B.... Dwek R.A. (1994)

    External Searches for APCS gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing APCS gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 325 HGNC: 584 AceView: APCS Ensembl:ENSG00000132703 euGenes: HUgn325
    ECgene: APCS H-InvDB: APCS

    Other Databases showing APCS gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing APCS gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for APCS Pharmacogenomics, SNPs, Pathways
    Wikipedia http://en.wikipedia.org/wiki/Serum_Amyloid_P_Component

    Intellectual Property
    for APCS gene

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

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



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    About This Section

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