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

SHF Gene

protein-coding   GIFtS: 46
GCID: GC15M045459

Src homology 2 domain containing F

 Explore 5 diseases affiliated with
SHF via our new
 Human Malady Compendium 
Biological research products
for SHF
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Src Homology 2 Domain Containing F1 2
SH2 Domain-Containing Adapter Protein F2

External Ids:    HGNC: 251161   Entrez Gene: 905252   Ensembl: ENSG000001386067   UniProtKB: Q7M4L63   

Export aliases for SHF gene to outside databases

Previous GC identifers: GC15M043247 GC15M022283


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: SHF_HUMAN, Q7M4L6
Function: Adapter protein which may play a role in the regulation of apoptosis in response to PDGF




(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000015.9  NC_018926.1  NT_010194.17  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SHF gene promoter:
         LHX3b/Lhx3b   RP58   p53   Egr-1   CUTL1   MIF-1   Nkx2-5   POU2F1   POU2F1a   LHX3a/Lhx3a   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSHF promoter sequence
   Search SABiosciences Chromatin IP Primers for SHF

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


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

Entrez Gene cytogenetic band: 15q21.1   Ensembl cytogenetic band:  15q21.1   HGNC cytogenetic band: 15q21.1

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

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15M045459:  view genomic region     (about GC identifiers)

Start:
45,459,412 bp from pter      End:
45,493,373 bp from pter
Size:
33,962 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: SHF_HUMAN, Q7M4L6 (See protein sequence)
Recommended Name: SH2 domain-containing adapter protein F  
Size: 423 amino acids; 46768 Da
Subunit: Interacts with phosphorylated 'Tyr-720' of PDGFRA via its SH2 domain
Miscellaneous: The sequence described in PubMed:11095946 is over-extended by 57 aa at the N-terminus due to the
presence of an uncorrected 5' mismatch compared to the reference genome sequence
Secondary accessions: Q96IE8
Alternative splicing: 2 isoforms:  Q7M4L6-1   Q7M4L6-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SHF: NX_Q7M4L6

Post-translational modifications:

  • May become phosphorylated upon binding to PDGFRA1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q7M4L6

  • SHF Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_612365.2  
    ENSEMBL proteins: 
     ENSP00000453370   ENSP00000290894   ENSP00000453168   ENSP00000453669   ENSP00000411530  
     ENSP00000454034   ENSP00000453676   ENSP00000453260   ENSP00000452726   ENSP00000453827  
     ENSP00000453986   ENSP00000315978  

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    Uscn Proteins for SHF


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    Uscn ELISAs and CLIAs for SHF


    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    SHF for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR000980 SH2

    Graphical View of Domain Structure for InterPro Entry Q7M4L6

    ProtoNet protein and cluster: Q7M4L6

    1 Blocks protein family: IPB000980 SH2 domain signature

    UniProtKB/Swiss-Prot: SHF_HUMAN, Q7M4L6
    Similarity: Contains 1 SH2 domain


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: SHF_HUMAN, Q7M4L6
    Function: Adapter protein which may play a role in the regulation of apoptosis in response to PDGF

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SHF
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    hsa-miR-3140-3p hsa-miR-128 hsa-miR-3681* hsa-miR-1203 hsa-miR-766 hsa-miR-3922-3p hsa-miR-3667-3p hsa-miR-211
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1PDGFR-alpha signaling pathway
    PDGFR-alpha signaling pathway1.00


    1 BioSystems Pathway for SHF 
        PDGFR-alpha signaling pathway


    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SHF

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for SHF (ENSP000002908944) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PDGFRAENSP000002572904STRING: ENSP00000257290
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006915apoptotic process IEA--


    SHF for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SHF
    Search CenterWatch for drugs/clinical trials and news about SHF 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SHF gene: 
    NM_138356.2  

    Unigene Cluster for SHF:

    Src homology 2 domain containing F
    Hs.310399  [show with all ESTs]
    Unigene Representative Sequence: NM_138356
    13 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000560540(uc010ueo.2) ENST00000290894(uc010uen.2 uc001zuy.3)
    ENST00000560734 ENST00000560413 ENST00000458022 ENST00000558294 ENST00000561239
    ENST00000560471(uc010ues.1 uc010uet.1 uc010ueu.2) ENST00000559566
    ENST00000558685 ENST00000561091 ENST00000561278 ENST00000318390

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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SHF
    8/11 QIAGEN miScript miRNA Assays for microRNAs that regulate SHF (see all 11):
    hsa-miR-3140-3p hsa-miR-128 hsa-miR-3681* hsa-miR-1203 hsa-miR-766 hsa-miR-3922-3p hsa-miR-3667-3p hsa-miR-211
    SwitchGear 3'UTR luciferase reporter plasmidSHF 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SHF (see all 4)
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    Clone
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    Additional cDNA sequence: 

    AK096267.1 AK301625.1 AK303749.1 BC007586.1 BC101601.1 BC101603.1 BC143601.1 BC171730.1 

    12 DOTS entries:

    DT.408131  DT.95324355  DT.100746226  DT.100745034  DT.101955847  DT.100688005  DT.40131908  DT.432600 
    DT.75154511  DT.97825673  DT.97826029  DT.97824199 

    24/79 AceView cDNA sequences (see all 79):

    BM727200 CR607464 CR597455 BM669861 CR613819 BM673643 CR626127 CR610652 
    CR604168 AA322771 NM_138356 BM712160 AK094391 BU727555 F13153 BF445569 
    BX332805 BX446025 BC007586 BX352799 CA335156 BM715118 BI915484 AI768068 

    GeneLoc Exon Structure

    5/8 Alternative Splicing Database (ASD) splice patterns (SP) for SHF (see all 8)    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b ^ 8a · 8b · 8c · 8d · 8e · 8f · 8g ^ 9 ^ 10a · 10b
    SP1:              -                                               -                       -     -     -     -               
    SP2:                                                              -                                                         
    SP3:                                      -     -                 -                                                         
    SP4:                                      -     -                 -                       -     -     -     -               
    SP5:                                                                                                                        


    ECgene alternative splicing isoforms for SHF

    (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

    SHF expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TCCCTGCTCT

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image

    SHF expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    2 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    BrainCerebral CortexBrain
    Neural TubeMetencephalonNeural Tube
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

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

    SOURCE GeneReport for Unigene cluster: Hs.310399

    UniProtKB/Swiss-Prot: SHF_HUMAN, Q7M4L6
    Tissue specificity: Expressed in skeletal muscle, brain, liver, prostate, testis, ovary, small intestine and colon

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    In Situ
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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)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for SHF gene from 5/16 species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves SHF1 Src homology 2 domain containing F 67.6(n)
    67.13(a)
      415339  XM_413725.2  XP_413725.2 
    lizard
    (Anolis carolinensis)
    Reptilia SHF6
    --
    57(a)
    1 ↔ 1
    GL343490.1(81198-85047)
    African clawed frog
    (Xenopus laevis)
    Amphibia BJ072127.12   -- 80.95(n)    BJ072127.1 
    zebrafish
    (Danio rerio)
    Actinopterygii si:ch73-116f3.36
    si:ch73-116f3.3
    76(a)
    1 ↔ 1
    18(49390432-49514397)
    fruit fly
    (Drosophila melanogaster)
    Insecta CG439216
    --
    5(a)
    1 → many
    X(12410667-12462394)


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SHF gene
    SHE2  ENSG000002558722  SHD2  SHB2  
    4 SIMAP similar genes for SHF using alignment to 16 protein entries:     SHF_HUMAN (see all proteins):
    SHB    PTPN11    SHE    SHD

    SHF for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for SHF
    PGOHUM00000262061


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/568 NCBI SNPs in SHF are shown (see all 568    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 15 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs17068151,2
    C,A,H,--45458935(+) CCTCCG/CCGGGC 1 -- int11Minor allele frequency- C:0.50NA 2
    rs16483101,2
    C,A,H,--45458954(-) CGCCCG/AGGCCT 1 -- int13Minor allele frequency- A:0.39NA 124
    rs71820811,2
    C,--45459112(+) GCCAAG/AGAGAC 1 -- int13Minor allele frequency- A:0.27NA EA 242
    rs16483091,2
    C,--45459182(-) CCTGCC/TACGCG 1 -- int14Minor allele frequency- T:0.38NA EA 126
    rs1825123451,2
    --45459262(+) GCTGTA/TGGCAG 1 -- int10--------
    rs71820071,2
    C,--45459277(+) TTGGAA/CGCGCT 1 -- int10--------
    rs16299061,2
    C,F,A,H,--45459564(-) CGGGCT/CAGAGG 1 -- ut31 ese320Minor allele frequency- C:0.49MN NS EA NA WA 2354
    rs1867001151,2
    --45459735(+) ACGGAA/GGCAGA 1 -- ut310--------
    rs1154257451,2
    C,F,--45459760(+) CCCCAA/GGGGGC 1 -- ut311Minor allele frequency- G:0.02WA 118
    rs1908207861,2
    --45459788(+) CGCACC/GGACCC 1 -- ut310--------

    HapMap Linkage Disequilibrium report for SHF (45459412 - 45493373 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SHF: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SHF
    DNA2.0 Custom Variant and Variant Library Synthesis for SHF

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    SHF for disorders           About GeneDecksing

    5 diseases for SHF:    About MalaCards
    otitis externa    diastolic heart failure    systolic heart failure    echinococcosis
    prostatitis

    2 diseases from the University of Copenhagen DISEASES database for SHF:
    Congestive heart failure     Otitis externa

    Export disorders for SHF 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 SHF gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SHF)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Shf, a Shb-like adapter protein, is involved in PDGF-alpha-receptor regulation of apoptosis. (PubMed id 11095946)1, 2, 3 Lindholm C.K.... Welsh M. (2000)
    2. Analysis of the DNA sequence and duplication history of human chromosome 15. (PubMed id 16572171)2 Zody M.C....Nusbaum C. (2006)
    3. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (2004)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)
    6. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    7. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (1996)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    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: 90525 HGNC: 25116 AceView: LOC90525 Ensembl:ENSG00000138606 euGenes: HUgn90525
    ECgene: SHF H-InvDB: SHF

    (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 SHF Pharmacogenomics, SNPs, Pathways

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

    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, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, 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
    Advanced Cell Diagnostics
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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    VWF
    (GIFTS: 73)
    von Willebrand factor
    GIFtS Group
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