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

TNFSF10 Gene

protein-coding   GIFtS: 70
GCID: GC03M172223

Tumor Necrosis Factor (Ligand) Superfamily, Member 10

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

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Tumor Necrosis Factor (Ligand) Superfamily, Member 101 2     TNF-Related Apoptosis Inducing Ligand TRAIL2
APO2L2 3 5     Tumor Necrosis Factor (Ligand) Family, Member 102
TRAIL2 3 5     Tumor Necrosis Factor Apoptosis-Inducing Ligand Splice Variant Delta2
Apo-2L2 3     Tumor Necrosis Factor Ligand Superfamily Member 102
Apo-2 Ligand2 3     CD253 Antigen3
CD2532     Protein TRAIL3
TL22     TNF-Related Apoptosis-Inducing Ligand3
Chemokine Tumor Necrosis Factor Ligand Superfamily Member 102     

External Ids:    HGNC: 119251   Entrez Gene: 87432   Ensembl: ENSG000001218587   OMIM: 6035985   UniProtKB: P505913   
ORGUL members:         
NONCODE14:n409611      

Export aliases for TNFSF10 gene to outside databases

Previous GC identifers: GC03M169274 GC03M173180 GC03M173625 GC03M173544 GC03M173706 GC03M169593


(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 TNFSF10 Gene:
The protein encoded by this gene is a cytokine that belongs to the tumor necrosis factor (TNF) ligand family. This
protein preferentially induces apoptosis in transformed and tumor cells, but does not appear to kill normal cells
although it is expressed at a significant level in most normal tissues. This protein binds to several members of
TNF receptor superfamily including TNFRSF10A/TRAILR1, TNFRSF10B/TRAILR2, TNFRSF10C/TRAILR3, TNFRSF10D/TRAILR4,
and possibly also to TNFRSF11B/OPG. The activity of this protein may be modulated by binding to the decoy
receptors TNFRSF10C/TRAILR3, TNFRSF10D/TRAILR4, and TNFRSF11B/OPG that cannot induce apoptosis. The binding of
this protein to its receptors has been shown to trigger the activation of MAPK8/JNK, caspase 8, and caspase 3.
Alternatively spliced transcript variants encoding different isoforms have been found for this gene. (provided by
RefSeq, Jul 2010)

GeneCards Summary for TNFSF10 Gene: 
TNFSF10 (tumor necrosis factor (ligand) superfamily, member 10) is a protein-coding gene, and is affiliated with the lncRNA class. Diseases associated with TNFSF10 include adult medulloblastoma, and caspase-8 deficiency, and among its related super-pathways are MIF Mediated Glucocorticoid Regulation and TNF Signaling. GO annotations related to this gene include tumor necrosis factor receptor binding and receptor binding. An important paralog of this gene is TNFSF11.

UniProtKB/Swiss-Prot: TNF10_HUMAN, P50591
Function: Cytokine that binds to TNFRSF10A/TRAILR1, TNFRSF10B/TRAILR2, TNFRSF10C/TRAILR3, TNFRSF10D/TRAILR4 and
possibly also to TNFRSF11B/OPG. Induces apoptosis. Its activity may be modulated by binding to the decoy
receptors TNFRSF10C/TRAILR3, TNFRSF10D/TRAILR4 and TNFRSF11B/OPG that cannot induce apoptosis

Gene Wiki entry for TNFSF10 (TRAIL) 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_000003.11  NC_018914.2  NT_005612.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TNFSF10 gene promoter:
         GR   STAT1   Sp1   HSF1 (long)   STAT5A   PPAR-gamma1   HSF1short   IRF-7A   PPAR-gamma2   GR-alpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTNFSF10 promoter sequence
   Search SABiosciences Chromatin IP Primers for TNFSF10

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TNFSF10


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

Entrez Gene cytogenetic band: 3q26   Ensembl cytogenetic band:  3q26.31   HGNC cytogenetic band: 3q26

TNFSF10 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TNFSF10 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M172223:  view genomic region     (about GC identifiers)

Start:
172,223,298 bp from pter      End:
172,241,297 bp from pter
Size:
18,000 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: TNF10_HUMAN, P50591 (See protein sequence)
Recommended Name: Tumor necrosis factor ligand superfamily member 10  
Size: 281 amino acids; 32509 Da
Cofactor: Binds 1 zinc ion per trimer
Subunit: Homotrimer
Subcellular location: Membrane; Single-pass type II membrane protein (Potential)
5 PDB 3D structures from and Proteopedia for TNFSF10:
1D0G (3D)        1D2Q (3D)        1D4V (3D)        1DG6 (3D)        1DU3 (3D)    
Secondary accessions: A1Y9B3
Alternative splicing: 2 isoforms:  P50591-1   P50591-2   (Induced upon HIV infection, antagonizes signaling via TRAIL receptor R2 (TNFRSF10B))

Explore the universe of human proteins at neXtProt for TNFSF10: NX_P50591

Explore proteomics data for TNFSF10 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P50591

  • TNFSF10 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TNFSF10 Protein Expression
    REFSEQ proteins (3 alternative transcripts): 
    NP_001177871.1  NP_001177872.1  NP_003801.1  

    ENSEMBL proteins: 
     ENSP00000241261   ENSP00000389931   ENSP00000404008  
    Reactome Protein details: P50591
    Human Recombinant Protein Products for TNFSF10: 
    EMD Millipore Purified and/or Recombinant TNFSF10 Protein
    R&D Systems Recombinant & Natural Proteins for TNFSF10 (TRAIL/TNFSF10)
    Enzo Life Sciences proteins for TNFSF10
    OriGene Purified Protein for TNFSF10
    OriGene Protein Over-expression Lysate for TNFSF10
    OriGene MassSpec for TNFSF10 
    OriGene Custom Protein Services for TNFSF10
    GenScript Custom Purified and Recombinant Proteins Services for TNFSF10
    Novus Biologicals TNFSF10 Proteins
    Novus Biologicals TNFSF10 Lysates
    Sino Biological Recombinant Protein for TNFSF10
    Browse Sino Biological Cell Lysates 
    ProSpec Recombinant Protein for TNFSF10
    Browse Proteins at Cloud-Clone Corp. 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0005615extracellular space IEA--
    GO:0005887integral to plasma membrane TAS8663110
    GO:0016020membrane ----

    TNFSF10 for ontologies           About GeneDecksing



    TNFSF10 Antibody Products: 
    EMD Millipore Mono- and Polyclonal Antibodies for the study of TNFSF10
    R&D Systems Antibodies for TNFSF10 (TRAIL/TNFSF10)
    Cell Signaling Technology (CST) Antibodies for TNFSF10  (TRAIL)
    OriGene Antibodies for TNFSF10
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    Novus Biologicals TNFSF10 Antibodies
    Abcam antibodies for TNFSF10
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    ThermoFisher Antibody for TNFSF10
    LSBio Antibodies in human, mouse, rat for TNFSF10 

    Assay Products for TNFSF10: 
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    Browse ELISAs at Cloud-Clone Corp. 
    Browse CLIAs at Cloud-Clone Corp.


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    CD: CD molecules
    TNFSF: Tumor necrosis factor (ligand) superfamily

    4 InterPro protein domains:
     IPR006052 TNF
     IPR008983 Tumour_necrosis_fac-like_dom
     IPR021184 TNF_CS
     IPR017355 TNF_ligand_10/11

    Graphical View of Domain Structure for InterPro Entry P50591

    ProtoNet protein and cluster: P50591

    1 Blocks protein domain: IPB006052 Tumor Necrosis Factor

    UniProtKB/Swiss-Prot: TNF10_HUMAN, P50591
    Similarity: Belongs to the tumor necrosis factor family


    TNFSF10 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: TNF10_HUMAN, P50591
    Function: Cytokine that binds to TNFRSF10A/TRAILR1, TNFRSF10B/TRAILR2, TNFRSF10C/TRAILR3, TNFRSF10D/TRAILR4 and
    possibly also to TNFRSF11B/OPG. Induces apoptosis. Its activity may be modulated by binding to the decoy
    receptors TNFRSF10C/TRAILR3, TNFRSF10D/TRAILR4 and TNFRSF11B/OPG that cannot induce apoptosis

         Genatlas biochemistry entry for TNFSF10:
    tumor necrosis factor (ligand) superfamily,member 10,TNF-related apoptosis inducing ligand (TRAIL),predominantly
    expressed in spleen,lung,prostate

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005102receptor binding TAS8663110
    GO:0005125cytokine activity IEA--
    GO:0005164tumor necrosis factor receptor binding IEA--
    GO:0005515protein binding IPI10549288
    GO:0046872metal ion binding IEA--
         
    TNFSF10 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for TNFSF10:
     Increased cell death in breast 

         8 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Tnfsf10):
     cellular  hematopoietic system  homeostasis/metabolism  immune system  liver/biliary system 
     mortality/aging  skeleton  tumorigenesis 

    TNFSF10 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-outs for TNFSF10: Tnfsf10tm1Sdg Tnfsf10tm1Mjs

       inGenious Targeting Laboratory - Custom generated mouse model solutions for TNFSF10 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for TNFSF10

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for TNFSF10 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for TNFSF10 

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TNFSF10
    6 QIAGEN miScript miRNA Assays for microRNAs that regulate TNFSF10:
    hsa-miR-501-5p hsa-miR-876-5p hsa-miR-491-3p hsa-miR-3182 hsa-miR-3647-3p hsa-miR-3167
    SwitchGear 3'UTR luciferase reporter plasmidTNFSF10 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for TNFSF10
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TNFSF10

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for TNFSF10
    Sirion Biotech Customized adenovirus for overexpression of TNFSF10

    Clone
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    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for TNFSF10 (see all 12)
    OriGene ORF clones in mouse, rat for TNFSF10
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 3): TNFSF10 (NM_003810)
    Sino Biological Human cDNA Clone for TNFSF10
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TNFSF10
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TNFSF10
    Sirion Biotech Customized lentivirus for stable overexpression of TNFSF10 
                         Customized lentivirus expression plasmids for stable overexpression of TNFSF10 

    Cell Line
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    GenScript Custom overexpressing Cell Line Services for TNFSF10
    LifeMap BioReagents: cell line associated with TNFSF10: PureStem ES-209, Meso-prx/latp Progenitor
    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TNFSF10


    (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 TNFSF10 About   (see all 21)                                                                                              See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1PEDF Induced Signaling
    MIF Mediated Glucocorticoid Regulation0.94
    NFAT Signaling and Lymphocyte Interactions0.57
    MIF Regulation of Innate Immune Cells0.94
    PGC1Alpha Pathway0.51
    PEDF Induced Signaling0.73
    STAT3 Pathway0.47
    all-trans-Retinoic Acid Signaling in Brain0.71
    Endothelin-1 Signaling Pathway0.46
    2TNF Signaling
    TNF Signaling0.50
    TNF Superfamily - Human Ligand-Receptor Interactions & their Associated Functions0.49
    Death Receptor Signaling0.50
    NF-kB (NFkB) Pathway0.46
    3Apoptosis and survival Apoptotic TNF-family pathways
    Apoptosis and survival Apoptotic TNF-family pathways0.35
    Apoptosis Signaling Pathways0.35
    4TGF-Beta Pathway
    TGF-Beta Pathway0.60
    JNK Pathway0.51
    MAPK Family Pathway0.60
    Regulation of eIF4 and p70S6K0.43
    JAK-STAT Pathway0.57
    SOCS Pathway0.40
    5Regulation by c-FLIP
    Extrinsic Pathway for Apoptosis0.93
    Dimerization of procaspase-80.90
    Death Receptor Signalling0.93
    Caspase-8 activation0.90
    Regulation by c-FLIP0.90

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 EMD Millipore Pathway for TNFSF10
        Apoptosis and survival Apoptotic TNF-family pathways

    2 R&D Systems Pathways for TNFSF10
        TNF Superfamily - Human Ligand-Receptor Interactions & their Associated Functions
    Apoptosis Signaling Pathways

    5/31 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for TNFSF10 (see all 31)
        Endothelin-1 Signaling Pathway
    Molecular Mechanisms of Cancer
    Antioxidant Action of Vitamin-C
    NFAT Signaling and Lymphocyte Interactions
    JNK Pathway

    1 Cell Signaling Technology (CST) Pathway for TNFSF10
        Apoptosis and Autophagy

    1 GeneGo (Thomson Reuters) Pathway for TNFSF10
        Apoptosis and survival Apoptotic TNF-family pathways

    4 BioSystems Pathways for TNFSF10
        Apoptosis
    Apoptosis Modulation and Signaling
    TP53 network
    TRAIL signaling pathway

    3 Sino Biological Pathways for TNFSF10 
        TNF Signaling
    Death Receptor Signaling
    NF-kB (NFkB) Pathway

    5/7        Reactome Pathways for TNFSF10 (see all 7)
        Death Receptor Signalling
    Extrinsic Pathway for Apoptosis
    Caspase-8 activation
    TRAIL signaling
    Dimerization of procaspase-8


    5         Kegg Pathways  (Kegg details for TNFSF10):
        Cytokine-cytokine receptor interaction
    Apoptosis
    Natural killer cell mediated cytotoxicity
    Measles
    Influenza A


    TNFSF10 for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for TNFSF10

    STRING Interaction Network Preview (showing 5 interactants - click image to see 24)

    5/36 Interacting proteins for TNFSF10 (P505911, 2, 3 ENSP000002412614) via UniProtKB, MINT, STRING, and/or I2D (see all 36)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CUL3Q136181, 3, ENSP000002644144EBI-495373,EBI-456129 I2D: score=1 STRING: ENSP00000264414
    ACP5P136862, 3MINT-63835 I2D: score=5 
    IER3P466953, ENSP000002598744I2D: score=2 STRING: ENSP00000259874
    ENSG00000206478P466953I2D: score=2 
    ENSG00000227231P466953I2D: score=2 
    About this table

    Gene Ontology (GO): 5/12 biological process terms (GO ID links to tree view) (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006915apoptotic process TAS--
    GO:0006919activation of cysteine-type endopeptidase activity involved in apoptotic process TAS--
    GO:0006955immune response IEA--
    GO:0007165signal transduction TAS8663110
    GO:0007267cell-cell signaling TAS8777713

    TNFSF10 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

    TNFSF10 for compounds           About GeneDecksing

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

    Browse Tocris compounds for TNFSF10 (TNF10)

    10/152 Novoseek inferred chemical compound relationships for TNFSF10 gene (see all 152)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tri (d) 81.7 15 10811986 (3), 9563466 (2), 10690508 (2), 10933923 (1) (see all 7)
    bortezomib 71 84 19261616 (6), 17326159 (6), 20442297 (6), 19768634 (5) (see all 29)
    mg 132 64.8 13 16082182 (2), 12556975 (1), 17252198 (1), 16520654 (1) (see all 9)
    suberoylanilide hydroxamic acid 63.4 15 19737941 (3), 17410615 (2), 16273296 (1), 17486365 (1) (see all 9)
    ly294002 61.3 27 16722146 (3), 17579344 (2), 18676851 (2), 17868340 (1) (see all 19)
    doxorubicin 61.1 145 12800232 (7), 12835727 (6), 16619517 (5), 17649723 (5) (see all 58)
    etoposide 61.1 91 16044155 (4), 17441316 (4), 20416058 (3), 15368357 (3) (see all 52)
    noxa 61 4 17569614 (1), 19050264 (1), 16888645 (1), 16026644 (1)
    sp 600125 60.5 6 17698840 (2), 15286701 (1), 19942932 (1), 16442178 (1)
    cycloheximide 54.8 52 10676636 (2), 14632785 (2), 15033719 (2), 16003319 (2) (see all 30)

    Search CenterWatch for drugs/clinical trials and news about TNFSF10 / TNF10

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TNFSF10 gene (3 alternative transcripts): 
    NM_001190942.1  NM_001190943.1  NM_003810.3  

    Unigene Cluster for TNFSF10:

    Tumor necrosis factor (ligand) superfamily, member 10
    Hs.478275  [show with all ESTs]
    Unigene Representative Sequence: NM_003810
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000241261(uc003fid.3 uc021xhk.1 uc003fie.3) ENST00000420541
    ENST00000430881 ENST00000494851 ENST00000472804 ENST00000466777(uc010hwu.2)

    Congresses - knowledge worth sharing:  
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
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    SwitchGear 3'UTR luciferase reporter plasmidTNFSF10 3' UTR sequence
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    Clone
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    GenScript: all cDNA clones in your preferred vector (see all 3): TNFSF10 (NM_003810)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TNFSF10
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TNFSF10
    Sirion Biotech Customized lentivirus for stable overexpression of TNFSF10 
                         Customized lentivirus expression plasmids for stable overexpression of TNFSF10 
    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TNFSF10
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TNFSF10

    Additional mRNA sequence: 

    AK296085.1 AK309200.1 AK312742.1 AY312579.1 BC009795.1 BC020220.1 BC032722.1 BT019564.1 
    CR456895.1 DQ848564.1 EU183231.1 NR_033994.1 U37518.1 U57059.1 

    17 DOTS entries:

    DT.449374  DT.100822130  DT.100769434  DT.40117324  DT.100822135  DT.100658129  DT.95363578  DT.100025860 
    DT.120854655  DT.120854676  DT.95278015  DT.97819079  DT.100822126  DT.120854632  DT.120854642  DT.95278008 
    DT.95361049 

    24/277 AceView cDNA sequences (see all 277):

    AA152416 AA298876 U57059 AU137748 AY312579 AI589336 CA772559 CR598109 
    CB215494 AI638788 AA176671 AU139518 NM_003810 AA669645 H38776 AW474434 
    BX424920 AA297900 AW303882 AL543620 AA176836 AA164632 AI656729 AA910517 

    GeneLoc Exon Structure

    5/8 Alternative Splicing Database (ASD) splice patterns (SP) for TNFSF10 (see all 8)    About this scheme

    ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c · 6d
    SP1:                                -     -                 -                 -                           
    SP2:                                -     -                 -     -           -                           
    SP3:                                -     -                 -                                             
    SP4:                                      -                                                               
    SP5:                                -     -                 -     -     -     -                           


    ECgene alternative splicing isoforms for TNFSF10

    (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

    TNFSF10 expression in normal human tissues (normalized intensities)      TNFSF10 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TTTGCTGTAG
    TNFSF10 Expression
    About this image


    TNFSF10 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/18 selected tissues (see all 18) fully expand
     
     Endothelium (Cardiovascular System)    fully expand to see all 9 entries
             Adult Endothelial Cells Blood Brain Barrier
             Human corneal endothelial cells
             Endothelial-like cells ( Derivation and purification of endothelial precursor cells...
             Human Pulmonary Artery Endothelial Cells (HPAEC)   
     
     Blood (Cardiovascular System)    fully expand to see all 4 entries
             T Helper Cells Thymus
             PureStem endothelial progenitor 30-MV2-12
             Natural killer-like cells ( Derivation of hematopoietic progenitor cells and natural...
     
     Epithelium (Uncategorized)    fully expand to see all 4 entries
             Human Tracheal Epithelial Cells (HTEpiC)   
     
     Brain (Nervous System)    fully expand to see all 3 entries
             Adult Endothelial Cells Blood Brain Barrier
             Human Brain Vascular Smooth Muscle Cells (HBVSMC)   
     
     Kidney (Urinary System)    fully expand to see all 3 entries
             Human Renal Mesangial Cells (HRMC)   

    See TNFSF10 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TNFSF10

    SOURCE GeneReport for Unigene cluster: Hs.478275

    UniProtKB/Swiss-Prot: TNF10_HUMAN, P50591
    Tissue specificity: Widespread; most predominant in spleen, lung and prostate

        SABiosciences Expression via Pathway-Focused PCR Arrays including TNFSF10 (see all 21): 
              HIV Host Response in human mouse rat
              TGFB/BMP Signaling Pathway in human mouse rat
              Autophagy in human mouse rat
              Endothelial Cell Biology in human mouse rat
              TGFB Signaling Targets 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)
    About This Section

    This gene was present in the common ancestor of chordates.

    Orthologs for TNFSF10 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 Tnfsf101 , 5 tumor necrosis factor (ligand) superfamily, member more1, 5 75.13(n)1
    67.05(a)1
      3 (10.82 cM)5
    220351  NM_009425.21  NP_033451.11 
     273170285 
    chicken
    (Gallus gallus)
    Aves TNFSF101 tumor necrosis factor (ligand) superfamily, member more 64.32(n)
    59.26(a)
      378894  NM_204379.1  NP_989710.1 
    lizard
    (Anolis carolinensis)
    Reptilia TNFSF106
    tumor necrosis factor (ligand) superfamily, member...
    50(a)
    1 ↔ 1
    3(6244923-6260846)
    zebrafish
    (Danio rerio)
    Actinopterygii tnfsf101 tumor necrosis factor (ligand) superfamily, member more 53.94(n)
    46.18(a)
      436866  NM_001002593.1  NP_001002593.1 


    ENSEMBL Gene Tree for TNFSF10 (if available)
    TreeFam Gene Tree for TNFSF10 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TNFSF10 gene
    TNFSF112  

    TNFSF10 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

    10/524 SNPs in TNFSF10 are shown (see all 524)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1912512101,2
    --169613871(+) GGCTCA/GCGCCT 1 -- us2k10--------
    rs1830070631,2
    --169613879(+) CCTGTA/TATCTC 3 -- us2k10--------
    rs3680991,2
    C,F--169613880(-) TGAGAT/ATACAG 3 -- us2k14Minor allele frequency- A:0.24NA WA 46
    rs1860741651,2
    --169613897(+) TAGGAA/GGCCGA 3 -- us2k10--------
    rs1143100681,2
    C,F--172222798(+) CCAGTG/TGGCCA 3 -- ds50011Minor allele frequency- T:0.03WA 118
    rs1925312361,2
    --172222878(+) GAGTTC/TAAGAC 3 -- ds50010--------
    rs28608641,2
    C,A--172222902(+) atggcG/Aaaacc 3 -- ds50014Minor allele frequency- A:0.00NA WA CSA 7
    rs1841514391,2
    --172222938(+) TAGCCA/GGGCAT 3 -- ds50010--------
    rs1888992051,2
    --172222996(+) AAAATC/TGCTTG 3 -- ds50010--------
    rs1461209201,2
    --172223051(+) CACTCC/TAGCCT 3 -- ds50010--------

    HapMap Linkage Disequilibrium report for TNFSF10 (172223298 - 172241297 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for TNFSF10:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv877987CNV Loss21882294
    nsv877989CNV Gain21882294
    nsv829794CNV Gain17160897
    nsv7356OTHER Inversion18451855


    Human Gene Mutation Database (HGMD): TNFSF10
    SABiosciences Cancer Mutation PCR Assays
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    DNA2.0 Custom Variant and Variant Library Synthesis for TNFSF10

    (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: 603598    OMIM disorders: --

    20/154 diseases for TNFSF10 (see all 154):    About MalaCards
    adult medulloblastoma    caspase-8 deficiency    thoracic cancer    malignant glioma
    cowpox    post-transplant lymphoproliferative disease    pericardial effusion    autoimmune lymphoproliferative syndrome
    oral cavity cancer    osteoporotic fracture    avian influenza    thrombotic thrombocytopenic purpura
    primary effusion lymphoma    newcastle disease    actinic keratosis    balanitis
    bacterial meningitis    colon adenocarcinoma    medulloblastoma    chronic graft versus host disease

    1 disease from the University of Copenhagen DISEASES database for TNFSF10:
    Cancer

    TNFSF10 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    The International Symposium on Pneumococci and Pneumococcal Diseases (ISPPD) 9 - 13 March 2014
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015

    10/94 Novoseek inferred disease relationships for TNFSF10 gene (see all 94)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    necrosis 90.9 1385 14555528 (3), 15808757 (3), 10438545 (2), 10947965 (2) (see all 99)
    tumors 83.9 2283 12384541 (6), 17437073 (6), 12391182 (5), 10626806 (5) (see all 99)
    cancer 76.3 867 15158769 (5), 19664138 (5), 17143496 (5), 20430723 (5) (see all 99)
    colon cancer 64.6 94 12168112 (3), 15993848 (3), 11309649 (3), 16153452 (3) (see all 59)
    malignant glioma 64 38 14655759 (3), 15110189 (2), 18634847 (2), 19939880 (2) (see all 22)
    glioma 58.3 131 18172319 (5), 11593384 (5), 18594532 (5), 17545549 (5) (see all 53)
    prostate cancer 57.4 135 16891474 (4), 11857034 (4), 18404675 (3), 11461904 (3) (see all 76)
    hepatocellular carcinoma 55.4 53 16792868 (4), 17244456 (2), 12750253 (2), 19497411 (2) (see all 38)
    glioblastoma 53.5 40 16622457 (4), 14596484 (3), 15504253 (3), 16357155 (3) (see all 20)
    reovirus infections 51.1 3 11687970 (1), 10933724 (1), 17661372 (1)

    Genetic Association Database (GAD): TNFSF10
    Human Genome Epidemiology (HuGE) Navigator: TNFSF10 (17 documents)

    Export disorders for TNFSF10 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 TNFSF10 gene, integrated from 9 sources (see all 1990):
    (articles sorted by number of sources associating them with TNFSF10)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification and characterization of a new member of the TNF family that induces apoptosis. (PubMed id 8777713)1, 2, 3, 9 Wiley S.R....Goodwin R.G. (1995)
    2. Induction of apoptosis by Apo-2 ligand, a new member of the tumor necrosis factor cytokine family. (PubMed id 8663110)1, 2, 3 Pitti R.M....Ashkenazi A. (1996)
    3. Isolation of a TRAIL antagonist from the serum of HIV -infected patients. (PubMed id 21859711)1, 2 Schnepple D.J....Badley A.D. (2011)
    4. 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)
    5. Polymorphism in tumor necrosis factor-related apoptos is-inducing ligand receptor 1 is associated with poor viral response to interfe ron-based hepatitis C virus therapy in HIV/hepatitis C virus-coinfected individ uals. (PubMed id 20802294)1, 4 Rizza S.A....Badley A.D. (2010)
    6. MicroRNA-related genetic variations as predictors for risk of second primary tumor and/or recurrence in patients with early-stage he ad and neck cancer. (PubMed id 20819778)1, 4 Zhang X....Wu X. (2010)
    7. Common single nucleotide polymorphisms in immunoregul atory genes and multiple myeloma risk among women in Connecticut. (PubMed id 20568250)1, 4 Lee K.M....Lan Q. (2010)
    8. TNF superfamily gene polymorphism as prognostic facto r in early breast cancer. (PubMed id 19890662)1, 4 Jung J.H....Park H.Y. (2010)
    9. High-density association study of 383 candidate genes for volumetric BMD at the femoral neck and lumbar spine among older men. (PubMed id 19453261)1, 4 Yerges L.M....Zmuda J.M. (2009)
    10. Common genetic variants in candidate genes and risk o f familial lymphoid malignancies. (PubMed id 19573080)1, 4 Liang X.S....Goldin L.R. (2009)

    (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: 8743 HGNC: 11925 AceView: TNFSF10 Ensembl:ENSG00000121858 euGenes: HUgn8743
    ECgene: TNFSF10 Kegg: 8743 H-InvDB: TNFSF10

    (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 TNFSF10 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for TNFSF10 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for TNFSF10 gene:
    Search GeneIP for patents involving TNFSF10

    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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