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PDGFB Gene

protein-coding   GIFtS: 70
GCID: GC22M039619

Platelet-Derived Growth Factor Beta Polypeptide

(Previous name: platelet-derived growth factor beta polypeptide (simian...)
(Previous symbol: SIS)
  See PDGFB-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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Aliases
Platelet-Derived Growth Factor Beta Polypeptide1 2 3     IBGC52 5
SIS1 2 3 5     Oncogene SIS1
Platelet-Derived Growth Factor Beta Polypeptide (Simian Sarcoma Viral
(V-Sis) Oncogene Homolog)1 2
     SSV2
becaplermin1 2     c-sis2
Platelet-Derived Growth Factor B Chain2 3     PDGF, B Chain2
Proto-Oncogene C-Sis2 3     Platelet-Derived Growth Factor 22
PDGF-22 3     Platelet-Derived Growth Factor Subunit B2
PDGF22 3     Platelet-Derived Growth Factor, Beta Polypeptide (Oncogene SIS)2
PDGF Subunit B2 3     Becaplermin3

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, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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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 protuberans, and meningioma, sis-related. 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000022.10  NC_018933.2  NT_011520.13  
Regulatory elements:
   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 Chromatin IP Primers for PDGFB

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing 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 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, LSBio, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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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)
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: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

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

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

    ENSEMBL proteins: 
     ENSP00000330382   ENSP00000370963   ENSP00000402306   ENSP00000405780  
    Reactome Protein details: P01127

    PDGFB Human Recombinant Protein Products:

    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
    OriGene Purified Proteins for PDGFB
    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

     
    eBioscience Proteins for PDGFB: (see all 2
                        Human PDGF-BB Recombinant Protein 5 ug

     
    antibodies-online proteins for PDGFB (77 products) 

     
    antibodies-online peptides for PDGFB

    PDGFB Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of PDGFB
    R&D Systems Antibodies for PDGFB (PDGF-B, PDGF-BB)
    OriGene Antibodies for PDGFB
    OriGene Custom Antibody Services for PDGFB
    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
    antibodies-online antibodies for PDGFB (23 products) 

    PDGFB Assay Products:

    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
    eBioscience ELISAs for PDGFB:  
                        Human PDGF-BB Platinum ELISA 96 tests
    antibodies-online kits for PDGFB (35 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    3 InterPro protein domains:
     IPR023581 PD_growth_factor_CS
     IPR000072 PDGF/VEGF_dom
     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


    Find genes that share domains with PDGFB           About GenesLikeMe


    (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,
    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: 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:
          selected tissues (see all 3)      
    Kidney: Mesangial Cells (S-shaped Body), Kidney Endothelial Cells (Glomerulus)
    Brain: Endothelial Cells (Blood Brain Barrier)

    It affects the following cells:
          selected tissues (see all 5)
    Lateral Plate Mesoderm: Vascular Smooth Muscle Cells (Splanchnic Mesoderm), Mural Cells (Splanchnic Mesoderm)       to see all 2 cells
    Kidney: Mesangial Cells (S-shaped Body), Kidney Endothelial Cells (Glomerulus)       to see all 2 cells

         Gene Ontology (GO): Selected molecular function terms (see all 10):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005161platelet-derived growth factor receptor binding NAS1661670
    GO:0005515protein binding IPI10806482
    GO:0005518collagen binding IDA8900172
    GO:0008083growth factor activity IDA12070119
    GO:0016176superoxide-generating NADPH oxidase activator activity IDA17942966
         
    Find genes that share ontologies with PDGFB           About GenesLikeMe


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

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

    Find genes that share phenotypes with PDGFB           About GenesLikeMe

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

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for PDGFB
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models 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-26b-5p (MIRT029444), hsa-mir-146b-3p (MIRT005548)

    Block miRNA regulation of human, mouse, rat PDGFB using miScript Target Protectors
    Selected qRT-PCR 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:
        
    OriGene RNAi products in human, mouse, rat for PDGFB
    Predesigned siRNA for gene silencing in human, mouse, rat PDGFB

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for PDGFB

    Clone
    Products:
         
    OriGene clones in human, mouse for PDGFB (see all 12)
    OriGene ORF clones in mouse, rat for PDGFB
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    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
    Addgene plasmids for PDGFB 

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for PDGFB
    ESI BIO PureStem Progenitor for PDGFB: 
    PureStem ES-209, Meso-prx/latp Progenitor
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PDGFB

    Flow Cytometry
    Products:
       

     
    eBioscience FlowRNA Probe Sets ( VA1-12980) for PDGFB 


    (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
    PDGFB_HUMAN, P01127: Secreted. Note=Released by platelets upon wounding
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    extracellular5
    endoplasmic reticulum4
    golgi apparatus4
    plasma membrane4
    cytoskeleton2
    nucleus2
    cytosol1
    mitochondrion1

    Gene Ontology (GO): Selected cellular component terms (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--

    Find genes that share ontologies with PDGFB           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 PDGFB About   (see all 48)  
    See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1Focal adhesion
    Focal adhesion0.65
    Focal Adhesion0.65
    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
    4Cytoskeleton remodeling Role of PDGFs in cell migration
    Cytoskeleton remodeling Role of PDGFs in cell migration
    PDGF Pathway0.00
    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


    Find genes that share SuperPaths with PDGFB           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    Selected Downloadable PowerPoint Slides of GeneGlobe 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

    Selected BioSystems Pathways for PDGFB (see all 8)
        MAPK signaling pathway
    Angiogenesis
    Focal Adhesion
    Regulation of Actin Cytoskeleton
    PDGF Pathway


    Selected Reactome Pathways for PDGFB (see all 6)
        Downstream signal transduction
    Platelet degranulation
    Constitutive PI3K/AKT Signaling in Cancer
    Signaling by PDGF
    PIP3 activates AKT signaling


    Selected Kegg Pathways  (Kegg details for PDGFB) (see all 15):
        MAPK signaling pathway
    Ras signaling pathway
    Rap1 signaling pathway
    Cytokine-cytokine receptor interaction
    PI3K-Akt signaling pathway

        Pathway & Disease-focused RT2 Profiler 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

    Interactions:

        GeneGlobe Interaction Network for PDGFB

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

    Selected 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): Selected biological process terms (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

    Find genes that share ontologies with PDGFB           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
       Enzo Life Sciences drugs & compounds for PDGFB
      Browse compounds at ApexBio 

    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

    Selected 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)



    Find genes that share compounds with PDGFB           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 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
    miRNA
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    Block miRNA regulation of human, mouse, rat PDGFB using miScript Target Protectors
    Selected qRT-PCR 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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    Predesigned siRNA for gene silencing in human, mouse, rat PDGFB
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    OriGene ORF clones in mouse, rat for PDGFB
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    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
    Addgene plasmids for PDGFB 
    Primer
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    OriGene qPCR primer pairs and template standards for PDGFB
    OriGene qSTAR qPCR primer pairs in human, mouse for PDGFB
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat PDGFB
      QuantiTect SYBR Green Assays in human, mouse, rat PDGFB
      QuantiFast Probe-based Assays in human, mouse, rat PDGFB
    Flow Cytometry
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    eBioscience FlowRNA Probe Sets ( VA1-12980) for 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 

    Selected AceView cDNA sequences (see all 112):

    AI635801 AA947584 AI304555 CR601724 BC077725 BX280801 CD634603 BC029822 
    CD367557 BX952119 CR456538 CR620580 H55385 BX377589 CR541807 M32009 
    BX418772 X83705 CB960288 CD634602 BX366754 NM_002608 AI909868 W67710 

    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™, 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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    PDGFB expression in normal human tissues (normalized intensities)
    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
     selected tissues (see all 16) fully expand
     
     Endothelium (Cardiovascular System)    fully expand to see all 7 entries
             Pericytes Microvessels
             Endothelial-like cells
     
     Brain (Nervous System)    fully expand to see all 6 entries
             Endothelial Cells Blood Brain Barrier
             Cerebral Cortex
     
     Kidney (Urinary System)    fully expand to see all 2 entries
             Kidney Endothelial Cells S-shaped Body
     
     Bone (Muscoskeletal System)    fully expand to see all 2 entries
             Bone Marrow
             Notch-transfected mesenchymal stromal cells (SB623)
     
     Ovary (Reproductive System)    fully expand to see all 2 entries
             Ovarian Mesenchymal Stroma Cells Ovary Interstitium
             Oviduct
    PDGFB Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    PDGFB Protein Expression

    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

        Pathway & Disease-focused RT2 Profiler 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

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    (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 PDGFB gene from Selected species (see all 11)    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 65.67(n)
    57.26(a)
      374128  NM_204270.2  NP_989601.2 
    lizard
    (Anolis carolinensis)
    Reptilia PDGFB6
    platelet-derived growth factor beta polypeptide
    51(a)
    1 ↔ 1
    5(24495542-24543730)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia pdgfb1 platelet-derived growth factor beta polypeptide 52.78(n)
    48.25(a)
      100492827  XM_002933750.2  XP_002933796.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC7964901 uncharacterized LOC796490 50.47(n)
    45.25(a)
      796490  XM_005171613.1  XP_005171670.1 


    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)
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    Paralogs for PDGFB gene
    PDGFA2  
    1 SIMAP similar gene for PDGFB using alignment to 4 protein entries:     PDGFB_HUMAN (see all proteins):
    PDGFA

    Find genes that share paralogs with PDGFB           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 PDGFB (see all 589)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 22 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0708714
    Basal ganglia calcification, idiopathic, 5 (IBGC5)4--see VAR_0708712 L P mis40--------
    VAR_0708704
    Basal ganglia calcification, idiopathic, 5 (IBGC5)4--see VAR_0708702 L R mis40--------
    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--------

    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
    Site Specific Mutation Identification with 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, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 190040   
    OMIM disorders: 607174  607907  615483  
    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

  • 17 diseases for PDGFB:    
    About MalaCards
    dermatofibrosarcoma protuberans    meningioma, sis-related    bednar's tumor    basal ganglia calcification, idiopathic, 5
    dermatofibrosarcoma    diabetic foot ulcers    meningioma    familial meningioma
    gingival overgrowth    basal ganglia cancification, idiopathic, 1    desmoid tumor    retinal detachment
    bronchiolitis obliterans    oligoastrocytoma    bronchiolitis    pulmonary fibrosis
    kaposi's sarcoma

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

    Find genes that share disorders with PDGFB           About GenesLikeMe

    Selected 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)
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    PubMed articles for PDGFB gene, integrated from 10 sources (see all 626):
    (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. (EMBO J. 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. (Nucleic Acids Res. 1985)
    3. PDGF D, a novel protease-activated growth factor. (PubMed id 11331882)1, 2, 9 LaRochelle W.J.... Lichenstein H.S. (Nat. Cell Biol. 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. (Nat. Genet. 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. (Clin. Nephrol. 2007)
    6. Common polymorphisms in ITGA2, PON1 and THBS2 are associated with coronary atherosclerosis in a candidate gene association study of the Chinese Han population. (PubMed id 20485444)1, 4 Wang Y....Huang W. (J. Hum. Genet. 2010)
    7. Evaluation of candidate stromal epithelial cross-talk genes identifies association between risk of serous ovarian cancer and TERT, a cancer susceptibility &quot;hot-spot&quot;. (PubMed id 20628624)1, 4 Johnatty S.E.... . (PLoS Genet. 2010)
    8. Are genetic variants in the platelet-derived growth factor [beta] gene associated with chronic pancreatitis? (PubMed id 20717068)1, 4 Muddana V....Whitcomb D.C. (Pancreas 2010)
    9. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (Diabetes Care 2010)
    10. Identification of fetal and maternal single nucleotide polymorphisms in candidate genes that predispose to spontaneous preterm labor with intact membranes. (PubMed id 20452482)1, 4 Romero R....Menon R. (Am. J. Obstet. Gynecol. 2010)

    (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: 5155 HGNC: 8800 AceView: PDGFB Ensembl:ENSG00000100311 euGenes: HUgn5155
    ECgene: PDGFB Kegg: 5155 H-InvDB: PDGFB

    (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)
    About This Section

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    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.)
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    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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