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

PDGFB Gene

protein-coding   GIFtS: 71
GCID: GC22M039619

Platelet-Derived Growth Factor Beta Polypeptide

(Previous name: platelet-derived growth factor beta polypeptide (simian...)
(Previous symbol: SIS)
Microbiology & Infectious Diseases Congress
  See 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)
About This Section

Aliases
Platelet-Derived Growth Factor Beta Polypeptide1 2 3     Oncogene SIS1
SIS1 2 3 5     SSV2
Platelet-Derived Growth Factor Beta Polypeptide (Simian Sarcoma Viral
(V-Sis) Oncogene Homolog)1 2
     c-sis2
becaplermin1 2     PDGF, B Chain2
Platelet-Derived Growth Factor B Chain2 3     Platelet-Derived Growth Factor 22
Proto-Oncogene C-Sis2 3     Platelet-Derived Growth Factor Subunit B2
PDGF-22 3     Platelet-Derived Growth Factor, Beta Polypeptide (Oncogene SIS)2
PDGF22 3     Becaplermin3
PDGF Subunit B2 3     

External Ids:    HGNC: 88001   Entrez Gene: 51552   Ensembl: ENSG000001003117   OMIM: 1900405   UniProtKB: P011273   

Export aliases for PDGFB gene to outside databases

Previous GC identifers: GC22M036234 GC22M037862 GC22M037944 GC22M022587


(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 PDGFB Gene:
The protein encoded by this gene is a member of the platelet-derived growth factor family. The four members of
this family are mitogenic factors for cells of mesenchymal origin and are characterized by a motif of eight
cysteines. This gene product can exist either as a homodimer (PDGF-BB) or as a heterodimer with the
platelet-derived growth factor alpha polypeptide (PDGF-AB), where the dimers are connected by disulfide bonds.
Mutations in this gene are associated with meningioma. Reciprocal translocations between chromosomes 22 and 17,
at sites where this gene and that for collagen type 1, alpha 1 are located, are associated with a particular type
of skin tumor called dermatofibrosarcoma protuberans resulting from unregulated expression of growth factor. Two
alternatively spliced transcript variants encoding different isoforms have been identified for this gene.
(provided by RefSeq, Feb 2013)

GeneCards Summary for PDGFB Gene: 
PDGFB (platelet-derived growth factor beta polypeptide) is a protein-coding gene. Diseases associated with PDGFB include dermatofibrosarcoma, and diabetic foot ulcers, and among its related super-pathways are Focal Adhesion and Regulation of actin cytoskeleton. GO annotations related to this gene include growth factor activity and protein homodimerization activity. An important paralog of this gene is PDGFA.

UniProtKB/Swiss-Prot: PDGFB_HUMAN, P01127
Function: Growth factor that plays an essential role in the regulation of embryonic development, cell
proliferation, cell migration, survival and chemotaxis. Potent mitogen for cells of mesenchymal origin. Required
for normal proliferation and recruitment of pericytes and vascular smooth muscle cells in the central nervous
system, skin, lung, heart and placenta. Required for normal blood vessel development, and for normal development
of kidney glomeruli. Plays an important role in wound healing. Signaling is modulated by the formation of
heterodimers with PDGFA (By similarity)

summary for PDGFB Gene:
Platelet-derived growth factor receptors (PDGFRs) are catalytic receptors that have intracellular tyrosine
kinase activity. They have roles in the regulation of many biological processes including embryonic
development, angiogenesis, cell proliferation and differentiation, and contribute to the pathophysiology of
some diseases, including cancer. There are two isoforms of the PDGFR receptor; PDGFRalpha and PDGFRbeta,
which can form homo- or heterodimers. The endogenous PDGFR ligands are PDGF-A, -B, -C and -D, which induce
receptor dimerization and transphosphorylation at specific tyrosine residues upon binding. This activates
the intracellular kinase activity, initiating intracellular signaling through the MAPK, PI 3-K and PKCgamma
pathways.

Gene Wiki entry for PDGFB 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_000022.10  NC_018933.2  NT_011520.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the PDGFB gene promoter:
         SRF   NF-1   SRF (504 AA)   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 5): PDGFB promoter sequence
   Search SABiosciences Chromatin IP Primers for PDGFB

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


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

Entrez Gene cytogenetic band: 22q13.1   Ensembl cytogenetic band:  22q13.1   HGNC cytogenetic band: 22q13.1

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

GeneLoc information about chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22M039619:  view genomic region     (about GC identifiers)

Start:
39,619,364 bp from pter      End:
39,640,957 bp from pter
Size:
21,594 bases      Orientation:
minus strand

(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: PDGFB_HUMAN, P01127 (See protein sequence)
Recommended Name: Platelet-derived growth factor subunit B precursor  
Size: 241 amino acids; 27283 Da
Subunit: Homodimer; antiparallel disulfide-linked dimer. Heterodimer with PDGFA; antiparallel disulfide-linked
dimer. The PDGFB homodimer interacts with PDGFRA and PDGFRB homodimers, and with heterodimers formed by PDGFRA
and PDGFRB. The heterodimer composed of PDGFA and PDGFB interacts with PDGFRB homodimers, and with heterodimers
formed by PDGFRA and PDGFRB. Interacts with XLKD1 (By similarity)
Subcellular location: Secreted. Note=Released by platelets upon wounding
4 PDB 3D structures from and Proteopedia for PDGFB:
1PDG (3D)        3MJG (3D)        4HQU (3D)        4HQX (3D)    
Secondary accessions: G3XAG8 P78431 Q15354 Q6FHE7 Q9UF23
Alternative promoter usage: 2 isoforms:  P01127-1   P01127-2   

Explore the universe of human proteins at neXtProt for PDGFB: NX_P01127

Explore proteomics data for PDGFB at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P01127

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

    PDGFB Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_002599.1  NP_148937.1  

    ENSEMBL proteins: 
     ENSP00000330382   ENSP00000370963   ENSP00000402306   ENSP00000405780  
    Reactome Protein details: P01127
    Human Recombinant Protein Products for PDGFB: 
    EMD Millipore Purified and/or Recombinant PDGFB Protein
    R&D Systems Recombinant & Natural Proteins for PDGFB (PDGF-BB)
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    OriGene Protein Over-expression Lysate for PDGFB
    OriGene Custom MassSpec 
    OriGene Custom Protein Services for PDGFB
    GenScript Purified and Recombinant Proteins for PDGFB
    Novus Biologicals PDGFB Proteins
    Novus Biologicals PDGFB Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    ProSpec Recombinant Protein for PDGFB
    Cloud-Clone Corp. Proteins for PDGFB 

    Gene Ontology (GO): 5/9 cellular component terms (GO ID links to tree view) (see all 9):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000139Golgi membrane TAS--
    GO:0005576extracellular region TAS--
    GO:0005615extracellular space IBA--
    GO:0005737cytoplasm ISS--
    GO:0005788endoplasmic reticulum lumen TAS--

    PDGFB for ontologies           About GeneDecksing



    PDGFB Antibody Products: 
    EMD Millipore Mono- and Polyclonal Antibodies for the study of PDGFB
    R&D Systems Antibodies for PDGFB (PDGF-B, PDGF-BB)
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    Novus Biologicals PDGFB Antibodies
    Abcam antibodies for PDGFB
    Cloud-Clone Corp. Antibodies for PDGFB 
    ThermoFisher Antibodies for PDGFB
    LSBio Antibodies in human, mouse, rat for PDGFB 

    Assay Products for PDGFB: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for PDGFB
    R&D Systems Flow Cytometry Kits for PDGFB (PDGF-BB)         (see all)
    GenScript Custom Assay Services for PDGFB
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for PDGFB 
    Cloud-Clone Corp. CLIAs for PDGFB


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    3 InterPro protein domains:
     IPR023581 PD_growth_factor_CS
     IPR000072 PD_growth_factor
     IPR006782 PDGF_N

    Graphical View of Domain Structure for InterPro Entry P01127

    ProtoNet protein and cluster: P01127

    3 Blocks protein domains:
    IPB000072 Platelet-derived growth factor (PDGF)
    IPB002400 Growth factor cystine knot superfamily signature
    IPB006782 Platelet-derived growth factor


    UniProtKB/Swiss-Prot: PDGFB_HUMAN, P01127
    Similarity: Belongs to the PDGF/VEGF growth factor family


    PDGFB for domains           About GeneDecksing


    (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: PDGFB_HUMAN, P01127
    Function: Growth factor that plays an essential role in the regulation of embryonic development, cell
    proliferation, cell migration, survival and chemotaxis. Potent mitogen for cells of mesenchymal origin. Required
    for normal proliferation and recruitment of pericytes and vascular smooth muscle cells in the central nervous
    system, skin, lung, heart and placenta. Required for normal blood vessel development, and for normal development
    of kidney glomeruli. Plays an important role in wound healing. Signaling is modulated by the formation of
    heterodimers with PDGFA (By similarity)

         Genatlas biochemistry entry for PDGFB:
    platelet-derived growth factor,beta polypeptide,27.3kDa,(simian sarcoma viral (v-sis) oncogene homolog),potent
    mitogen for cells of mesenchymal origin,also involved in transformation process

         Summary:
    During embryonic development, PDGFB as signaling molecule is secreted from the following cells: Angioblasts in Embryonic Capillary Plexus, Endothelial Cells in Blood Brain Barrier (see all 4).

    It affects the following cells: Kidney Endothelial Cells in S-shaped Body, Mesangial Cells in Glomerulus (see all 7).

         Gene Ontology (GO): 5/10 molecular function terms (GO ID links to tree view) (see all 10):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005161platelet-derived growth factor receptor binding NAS1661670
    GO:0005515protein binding IPI12070119
    GO:0005518collagen binding IDA8900172
    GO:0008083growth factor activity IEA--
    GO:0016176superoxide-generating NADPH oxidase activator activity IDA17942966
         
    PDGFB for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for PDGFB:
     Decreased substrate adherent c  Increased cell death HMECs cel 

         15/17 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Pdgfb) (see all 17):
     cardiovascular system  embryogenesis  growth/size  hematopoietic system  homeostasis/metabolism 
     immune system  integument  liver/biliary system  mortality/aging  muscle 
     nervous system  no phenotypic analysis  pigmentation  renal/urinary system  reproductive system 

    PDGFB for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-outs for PDGFB: Pdgfbtm3Cbet Pdgfbtm3.1Cbet Pdgfbtm1Cbet

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

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

    miRNA
    Products:
        
    miRTarBase miRNAs that target PDGFB:
    hsa-mir-146b-3p (MIRT005548)

    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat PDGFB
    8/38 QIAGEN miScript miRNA Assays for microRNAs that regulate PDGFB (see all 38):
    hsa-miR-579 hsa-miR-2052 hsa-miR-19b-2* hsa-let-7d hsa-miR-1224-3p hsa-miR-29a hsa-let-7g hsa-let-7a
    SwitchGear 3'UTR luciferase reporter plasmidPDGFB 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for PDGFB
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    Gene Editing
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    Sirion Biotech Customized adenovirus for overexpression of PDGFB

    Clone
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    GenScript: all cDNA clones in your preferred vector (see all 2): PDGFB (NM_002608)
    Sino Biological Human cDNA Clone for PDGFB
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PDGFB
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDGFB
    Sirion Biotech Customized lentivirus for stable overexpression of PDGFB 
                         Customized lentivirus expression plasmids for stable overexpression of PDGFB 

    Cell Line
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    LifeMap BioReagents: cell line associated with PDGFB: PureStem ES-209, Meso-prx/latp Progenitor
    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PDGFB


    (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 PDGFB About   (see all 47)                                                                                              See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1Focal Adhesion
    Focal Adhesion0.64
    Focal adhesion0.64
    2Regulation of Actin Cytoskeleton
    Regulation of Actin Cytoskeleton0.57
    Regulation of actin cytoskeleton0.57
    3MAPK signaling pathway
    MAPK signaling pathway0.50
    MAPK signaling pathway0.50
    4Development HGF signaling pathway
    Development PDGF signaling via MAPK cascades0.41
    Renal cell carcinoma0.30
    5Apoptotic Pathways in Synovial Fibroblasts
    Mitochondrial Apoptosis0.85
    Rac1 Pathway0.65
    Cellular Apoptosis Pathway0.85
    Glioma Invasiveness0.64
    Apoptotic Pathways in Synovial Fibroblasts0.84
    Actin-Based Motility by Rho Family GTPases0.62
    p53 Mediated Apoptosis0.84
    ERK5 Signaling0.61

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    4 EMD Millipore Pathways for PDGFB
        Development PDGF signaling via MAPK cascades
    Development PDGF signaling via STATs and NF-kB
    Cytoskeleton remodeling Role of PDGFs in cell migration
    G-protein signaling H-RAS regulation pathway

    5/59 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for PDGFB (see all 59)
        Nuclear Receptor Activation by Vitamin-A
    Paxillin Interactions
    Telomerase Components in Cell Signaling
    Mitochondrial Apoptosis
    Molecular Mechanisms of Cancer

    5 GeneGo (Thomson Reuters) Pathways for PDGFB
        G-protein signaling H-RAS regulation pathway
    Development PDGF signaling via STATs and NF-kB
    Cytoskeleton remodeling Role of PDGFs in cell migration
    Development PDGF signaling via MAPK cascades
    Inhibitory action of Lipoxin A4 on PDGF, EGF and LTD4 signaling

    5/7 BioSystems Pathways for PDGFB (see all 7)
        Angiogenesis
    MAPK signaling pathway
    Focal Adhesion
    Regulation of Actin Cytoskeleton
    PDGFR-beta signaling pathway


    5/37        Reactome Pathways for PDGFB (see all 37)
        Signaling by EGFR in Cancer
    Extracellular matrix organization
    Downstream signal transduction
    Signal Transduction
    Signaling by PDGF


    5/13         Kegg Pathways  (Kegg details for PDGFB) (see all 13):
        MAPK signaling pathway
    Cytokine-cytokine receptor interaction
    PI3K-Akt signaling pathway
    Focal adhesion
    Gap junction


    PDGFB for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for PDGFB

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

    5/76 Interacting proteins for PDGFB (P011273 ENSP000003303824) via UniProtKB, MINT, STRING, and/or I2D (see all 76)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HSPG2P981603, ENSP000003638274I2D: score=2 STRING: ENSP00000363827
    LRP1Q079543, ENSP000002430774I2D: score=2 STRING: ENSP00000243077
    PDGFRBP096193, ENSP000002617994I2D: score=2 STRING: ENSP00000261799
    SPARCP094863, ENSP000002310614I2D: score=2 STRING: ENSP00000231061
    ART1P529613, ENSP000002506934I2D: score=1 STRING: ENSP00000250693
    About this table

    Gene Ontology (GO): 5/84 biological process terms (GO ID links to tree view) (see all 84):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001568blood vessel development ----
    GO:0001666response to hypoxia IEA--
    GO:0001892embryonic placenta development ISS--
    GO:0001938positive regulation of endothelial cell proliferation IDA9685360
    GO:0002548monocyte chemotaxis IDA17991872

    PDGFB for ontologies           About GeneDecksing



    (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

    PDGFB for compounds           About GeneDecksing

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

    Compounds for PDGFB available from Tocris Bioscience    About this table
    CompoundAction CAS #
    SU 6668 PDGFR, VEGFR and FGFR inhibitor [252916-29-3]
    Sunitinib malate Potent VEGFR, PDGFRbeta and KIT inhibitor [341031-54-7]
    DMPQ dihydrochloride Potent, selective inhibitor of PDGFRbeta [137206-97-4]
    SU 16fPotent and selective PDGFRbeta inhibitor[251356-45-3]

    UniProtKB/Swiss-Prot: PDGFB_HUMAN, P01127
    Pharmaceutical: Available under the name Regranex (Ortho-McNeil). Used to promote healing in diabetic neuropathic
    foot ulcers

    10/34 Novoseek inferred chemical compound relationships for PDGFB gene (see all 34)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    regranex 89.4 8 16464208 (2), 16676854 (1), 10417749 (1), 19067861 (1) (see all 7)
    imatinib 59.6 5 20042679 (1), 19234339 (1), 17145809 (1), 19106991 (1) (see all 5)
    vegf 55.5 39 17671690 (3), 12651601 (3), 18506785 (2), 16596190 (2) (see all 29)
    tgf beta1 36.4 7 15682418 (3), 15201664 (2), 16308570 (1), 19706334 (1)
    tyrosine 34.5 7 10652433 (1), 12651221 (1), 7862136 (1), 1646396 (1) (see all 5)
    cystine 27.3 2 9027341 (1), 15192308 (1)
    ribonucleic acid 25.5 5 8177392 (2), 1651380 (1), 8520779 (1), 11063355 (1)
    thymidine 25.3 2 16014047 (1), 10437122 (1)
    polyglycolic acid 18.4 4 11352431 (2), 10597824 (1)
    bromodeoxyuridine 12.6 1 10024303 (1)

    Search CenterWatch for drugs/clinical trials and news about PDGFB

    (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,
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    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 PDGFB gene (2 alternative transcripts): 
    NM_002608.2  NM_033016.2  

    Unigene Cluster for PDGFB:

    Platelet-derived growth factor beta polypeptide
    Hs.1976  [show with all ESTs]
    Unigene Representative Sequence: M12783
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000331163(uc003axe.3 uc003axf.3) ENST00000381551 ENST00000455790
    ENST00000440375
    Congresses - knowledge worth sharing:  
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat PDGFB
    8/38 QIAGEN miScript miRNA Assays for microRNAs that regulate PDGFB (see all 38):
    hsa-miR-579 hsa-miR-2052 hsa-miR-19b-2* hsa-let-7d hsa-miR-1224-3p hsa-miR-29a hsa-let-7g hsa-let-7a
    SwitchGear 3'UTR luciferase reporter plasmidPDGFB 3' UTR sequence
    Inhib. RNA
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    GenScript: all cDNA clones in your preferred vector (see all 2): PDGFB (NM_002608)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PDGFB
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDGFB
    Sirion Biotech Customized lentivirus for stable overexpression of PDGFB 
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PDGFB

    Additional mRNA sequence: 

    AK022920.1 BC029822.1 BC077725.1 CR456538.1 CR541807.1 M12783.1 M32009.1 X02744.1 
    X02811.1 X03702.1 X83705.1 

    3 DOTS entries:

    DT.414662  DT.100755186  DT.100834861 

    24/112 AceView cDNA sequences (see all 112):

    BC077725 AI304555 BX377589 AA947584 CR601724 BC029822 CR456538 CR541807 
    X83705 BX418772 AI635801 CR620580 BX280801 CD634603 CD367557 M32009 
    BX952119 H55385 M12783 X02811 W72000 CB960288 T29371 X03702 

    GeneLoc Exon Structure


    (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

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


    PDGFB expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/42 selected tissues (see all 42) fully expand
     
     Endothelium (Cardiovascular System)    fully expand to see all 23 entries
             Pericytes Microvessels
             PureStem endothelial progenitor 30-SM2-1
             Endothelial-like cells ( Derivation and purification of endothelial precursor cells...
             Human Cardiac Microvascular Endothelial Cells (HCMEC)   
             huvec   
     
     Blood (Hematopoietic System)    fully expand to see all 6 entries
             Natural Killer Cells Peripheral Blood
             PureStem endothelial Progenitor 30-SM2-3
             lung ; macrophages   
             cd31+ cells   
     
     Brain (Nervous System)    fully expand to see all 6 entries
             Endothelial Cells Blood Brain Barrier
             Hippocampus
             Human Brain Microvascular Endothelial Cells (HBMEC)   
     
     Epithelium
             esophagus ; squamous epithelial cells   
     
     Testis (Reproductive System)    fully expand to see all 4 entries
             Leydig Cells Testis Interstitium
             seminal vesicle ; glandular cells   

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

    SOURCE GeneReport for Unigene cluster: Hs.1976

    UniProtKB/Swiss-Prot: PDGFB_HUMAN, P01127
    Tissue specificity: Expressed at high levels in the heart, brain (sustantia nigra), placenta and fetal kidney.
    Expressed at moderate levels in the brain (hippocampus), skeletal muscle, kidney and lung

        SABiosciences Expression via Pathway-Focused PCR Arrays including PDGFB (see all 9): 
              Fibrosis in human mouse rat
              NFKB Signaling Targets in human mouse rat
              Angiogenic Growth Factors in human mouse rat
              TGFB/BMP Signaling Pathway in human mouse rat
              Angiogenesis 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 PDGFB

    (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 PDGFB 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 Pdgfb1 , 5 platelet derived growth factor, B polypeptide1, 5 86.31(n)1
    89.63(a)1
      15 (37.85 cM)5
    185911  NM_011057.31  NP_035187.21 
     799959005 
    chicken
    (Gallus gallus)
    Aves PDGFB1 platelet-derived growth factor beta polypeptide 66.82(n)
    59.91(a)
      374128  NM_204270.2  NP_989601.2 
    lizard
    (Anolis carolinensis)
    Reptilia PDGFB6
    platelet-derived growth factor beta polypeptide
    52(a)
    1 ↔ 1
    5(24495542-24543730)
    zebrafish
    (Danio rerio)
    Actinopterygii LOC7964901 uncharacterized LOC796490 48.97(n)
    41.75(a)
      796490  XM_001336795.4  XP_001336831.3 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for PDGFB gene
    PDGFA2  
    1 SIMAP similar gene for PDGFB using alignment to 4 protein entries:     PDGFB_HUMAN (see all proteins):
    PDGFA

    PDGFB for paralogs           About GeneDecksing



    (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

    10/587 SNPs in PDGFB are shown (see all 587)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 22 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs755385831,2
    C,F--23536830(+) AGACCC/TGGCTT 2 -- int11Minor allele frequency- T:0.02WA 118
    rs1512189421,2
    --23536922(+) CAGCCC/TACCCC 2 -- int10--------
    rs1413792731,2
    C--23536929(+) CCCCAC/TGATGC 2 -- int10--------
    rs1452361391,2
    C--23536933(+) ACGATA/GCTGAG 2 -- int10--------
    rs1177870661,2
    F--23537016(+) TCCACG/ATGTCA 2 -- int11Minor allele frequency- A:0.01EA 120
    rs1476036211,2
    C--23537045(+) AGACCA/GACAGA 2 -- int10--------
    rs1416649241,2
    C--23537074(+) CTTCCC/TGCCAG 2 -- int10--------
    rs1504221721,2
    C--23537099(+) CAAGTC/TGCAGG 2 -- int10--------
    rs1144500381,2
    C,F--23537101(+) AGTTGC/TAGGCC 2 -- int11Minor allele frequency- T:0.09WA 118
    rs3693269931,2
    C--23537173(+) GTGTGA/CGATCA 2 -- int10--------

    HapMap Linkage Disequilibrium report for PDGFB (39619364 - 39640957 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for PDGFB:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2724248CNV Deletion23290073
    dgv4974n71CNV Loss21882294
    nsv915095CNV Loss21882294
    nsv834198CNV Loss17160897


    Human Gene Mutation Database (HGMD): PDGFB
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing PDGFB
    DNA2.0 Custom Variant and Variant Library Synthesis for PDGFB

    (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: 190040    OMIM disorders: --

    UniProtKB/Swiss-Prot: PDGFB_HUMAN, P01127
  • Note=A chromosomal aberration involving PDGFB is found in dermatofibrosarcoma protuberans. Translocation
    t(17;22)(q22;q13) with PDGFB

  • 20/114 diseases for PDGFB (see all 114):    About MalaCards
    dermatofibrosarcoma    diabetic foot ulcers    bednar's tumor    familial meningioma
    dermatofibrosarcoma protuberans    meningioma    gingival overgrowth    retinal detachment
    costello syndrome    bronchiolitis obliterans    oligoastrocytoma    chronic graft versus host disease
    desmoid tumor    bronchiolitis    periostitis    bullous keratopathy
    benign tumors    pulmonary fibrosis    keratopathy    ring chromosomes

    7 diseases from the University of Copenhagen DISEASES database for PDGFB:
    Hepatitis E     Dermatofibrosarcoma     Gastroenteritis     Hepatitis
    Atherosclerosis     Malignant glioma     Glomerulonephritis

    PDGFB for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    The International Symposium on Pneumococci and Pneumococcal Diseases (ISPPD) 9 - 13 March 2014

    10/85 Novoseek inferred disease relationships for PDGFB gene (see all 85)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    dermatofibrosarcoma protuberans 83.7 13 17431412 (2), 19663837 (2), 20194851 (1), 15681532 (1) (see all 10)
    diabetic foot 61.9 15 11548912 (3), 20479444 (2), 20486728 (2), 14652415 (1) (see all 11)
    dermatofibrosarcoma 59.8 2 9739023 (1), 15583853 (1)
    foot ulcer 56.7 5 18686746 (2), 14652415 (1), 19707423 (1), 10719543 (1)
    ulcer 53.7 40 16464208 (4), 9589248 (4), 11075012 (3), 10564562 (3) (see all 17)
    glioma 50.4 38 8177392 (6), 1508312 (5), 12651601 (5), 17292826 (3) (see all 14)
    glioblastoma 47.6 7 2117995 (1), 1324785 (1), 8789659 (1), 7757303 (1) (see all 6)
    gingival overgrowth 44.7 10 9029455 (2), 8708960 (2), 8708959 (1), 8463938 (1)
    tumors 44.6 88 7903911 (4), 18758297 (4), 1353485 (3), 2164040 (3) (see all 57)
    renal fibrosis 41.7 2 18077793 (1), 14514732 (1)

    Genetic Association Database (GAD): PDGFB
    Human Genome Epidemiology (HuGE) Navigator: PDGFB (14 documents)

    Export disorders for PDGFB 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)
    About This Section

    PubMed articles for PDGFB gene, integrated from 9 sources (see all 619):
    (articles sorted by number of sources associating them with PDGFB)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Two PDGF-B chain residues, arginine 27 and isoleucine 30, mediate receptor binding and activation. (PubMed id 1661670)1, 2, 3 Clements J.M.... Winslow D. (1991)
    2. Nucleotide sequence of transforming human c-sis cDNA clones with homology to platelet-derived growth factor. (PubMed id 2991848)1, 2, 3 Ratner L.... Wong-Staal F. (1985)
    3. PDGF D, a novel protease-activated growth factor. (PubMed id 11331882)1, 2, 9 LaRochelle W.J.... Lichenstein H.S. (2001)
    4. Deregulation of the platelet-derived growth factor B-chain gene via fusion with collagen gene COL1A1 in dermatofibrosarcoma protuberans and giant-cell fibroblastoma. (PubMed id 8988177)1, 2, 9 Simon M.-P.... Dumanski J.P. (1997)
    5. PDGF-B gene single-nucleotide polymorphisms are not predictive for disease onset or progression of IgA nephropathy. (PubMed id 17338425)1, 4, 9 Bicanski B....Floege J. (2007)
    6. Common polymorphisms in ITGA2, PON1 and THBS2 are ass ociated with coronary atherosclerosis in a candidate gene association study of the Chinese Han population. (PubMed id 20485444)1, 4 Wang Y....Huang W. (2010)
    7. Evaluation of candidate stromal epithelial cross-talk genes identifies association between risk of serous ovarian cancer and TERT, a cancer susceptibility 'hot-spot'. (PubMed id 20628624)1, 4 Johnatty S.E.... . (2010)
    8. Are genetic variants in the platelet-derived growth f actor [beta] gene associated with chronic pancreatitis? (PubMed id 20717068)1, 4 Muddana V....Whitcomb D.C. (2010)
    9. Variation at the NFATC2 locus increases the risk of t hiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipr il and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (2010)
    10. Identification of fetal and maternal single nucleotid e polymorphisms in candidate genes that predispose to spontaneous preterm labor with intact membranes. (PubMed id 20452482)1, 4 Romero R....Menon R. (2010)

    (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)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 5155 HGNC: 8800 AceView: PDGFB Ensembl:ENSG00000100311 euGenes: HUgn5155
    ECgene: PDGFB Kegg: 5155 H-InvDB: PDGFB

    (According to HUGE)
    About This Section
      --

    (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 PDGFB Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for PDGFB Genetics and Cytogenetics in Oncology and Haematology
    R&D Systems' cytokine source book: PDGFhttp://www.rndsystems.com/molecule_detail.aspx?m=1967
    Regranexhttp://www.regranex.com/

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

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



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

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