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

LTB Gene

protein-coding   GIFtS: 61
GCID: GC06M031549

Lymphotoxin Beta (TNF Superfamily, Member 3)


(Previous symbol: TNFC)
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Lymphotoxin Beta (TNF Superfamily, Member 3)1 2     TNF-C2 3
TNFC1 2 3 5     TNFSF32 3
Tumor Necrosis Factor C2 3     lymphotoxin-beta2
Tumor Necrosis Factor Ligand Superfamily Member 32 3     p332
LT-beta2 3     

External Ids:    HGNC: 67111   Entrez Gene: 40502   Ensembl: ENSG000002275077   OMIM: 6009785   UniProtKB: Q066433   

Export aliases for LTB gene to outside databases

Previous GC identifers: GC06M031611 GC06M031602 GC06M031319 GC06M031652 GC06M031656 GC06M031335


(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 LTB Gene:
Lymphotoxin beta is a type II membrane protein of the TNF family. It anchors lymphotoxin-alpha to the cell surface
through heterotrimer formation. The predominant form on the lymphocyte surface is the lymphotoxin-alpha 1/beta 2
complex (e.g. 1 molecule alpha/2 molecules beta) and this complex is the primary ligand for the lymphotoxin-beta
receptor. The minor complex is lymphotoxin-alpha 2/beta 1. LTB is an inducer of the inflammatory response system
and involved in normal development of lymphoid tissue. Lymphotoxin-beta isoform b is unable to complex with
lymphotoxin-alpha suggesting a function for lymphotoxin-beta which is independent of lympyhotoxin-alpha.
Alternative splicing results in multiple transcript variants encoding different isoforms. (provided by RefSeq,
Jul 2008)

GeneCards Summary for LTB Gene: 
LTB (lymphotoxin beta (TNF superfamily, member 3)) is a protein-coding gene. Diseases associated with LTB include chronic graft versus host disease, and typhoid fever, and among its related super-pathways are TNF Signaling and LT-BetaR Pathway. GO annotations related to this gene include tumor necrosis factor receptor binding and receptor binding.

UniProtKB/Swiss-Prot: TNFC_HUMAN, Q06643
Function: Cytokine that binds to LTBR/TNFRSF3. May play a specific role in immune response regulation. Provides
the membrane anchor for the attachment of the heterotrimeric complex to the cell surface. Isoform 2 is probably
non-functional

Gene Wiki entry for LTB (Lymphotoxin beta) 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_000006.11  NC_018917.2  NT_007592.15  NT_113891.2  NT_167244.1  NT_167245.1  NT_167246.1  NT_167247.1  
NT_167248.1  NT_167249.1  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the LTB gene promoter:
         COUP-TF   p53   AP-1   ATF-2   COUP   c-Jun   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidLTB promoter sequence
   Search SABiosciences Chromatin IP Primers for LTB

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


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

Entrez Gene cytogenetic band: 6p21.3   Ensembl cytogenetic band:  6p21.33   HGNC cytogenetic band: 6p21.3

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

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M031549:  view genomic region     (about GC identifiers)

Start:
31,548,302 bp from pter      End:
31,550,299 bp from pter
Size:
1,998 bases      Orientation:
minus strand

6/7 alternative locations (see all 7):
Chr6-,NT_167248 2,841,975-2,843,842      Chr6-,NT_167249 2,879,136-2,881,003      Chr6-,NT_113891.2 3,057,951-3,059,818     
Chr6-,NT_167247 2,928,041-2,929,908      Chr6-,NT_167244 2,863,053-2,864,920      Chr6-,NT_167245 2,833,876-2,835,743     

(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: TNFC_HUMAN, Q06643 (See protein sequence)
Recommended Name: Lymphotoxin-beta  
Size: 244 amino acids; 25390 Da
Subunit: Heterotrimer of either two LTB and one LTA subunits or (less prevalent) one LTB and two LTA subunits
Subcellular location: Membrane; Single-pass type II membrane protein (Potential)
Secondary accessions: P78370 Q52LU8 Q99761
Alternative splicing: 2 isoforms:  Q06643-1   Q06643-2   

Explore the universe of human proteins at neXtProt for LTB: NX_Q06643

Explore proteomics data for LTB at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q06643

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

    LTB Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_002332.1  NP_033666.1  

    ENSEMBL proteins: 
     ENSP00000410481   ENSP00000416113  

    Human Recombinant Protein Products for LTB: 
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    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    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:0005575cellular_component ND--
    GO:0005615extracellular space IEA--
    GO:0016020membrane ----
    GO:0016021integral to membrane IEA--

    LTB for ontologies           About GeneDecksing



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    Novus Biologicals LTB Antibodies
    Abcam antibodies for LTB
    Browse Antibodies at Cloud-Clone Corp. 
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    LSBio Antibodies in human, mouse, rat for LTB 

    Assay Products for LTB: 
    Browse Kits and Assays available from EMD Millipore
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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: 
    TNFSF: Tumor necrosis factor (ligand) superfamily

    5 InterPro protein domains:
     IPR021184 TNF_CS
     IPR002961 TNF_C
     IPR006052 TNF
     IPR006053 TNF_a/b/c
     IPR008983 Tumour_necrosis_fac-like_dom

    Graphical View of Domain Structure for InterPro Entry Q06643

    ProtoNet protein and cluster: Q06643

    3 Blocks protein domains:
    IPB002961 Tumour necrosis factor c (lymphotoxin-beta) signature
    IPB006052 Tumor Necrosis Factor
    IPB006053 Tumour necrosis factor family signature


    UniProtKB/Swiss-Prot: TNFC_HUMAN, Q06643
    Similarity: Belongs to the tumor necrosis factor family


    LTB 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: TNFC_HUMAN, Q06643
    Function: Cytokine that binds to LTBR/TNFRSF3. May play a specific role in immune response regulation. Provides
    the membrane anchor for the attachment of the heterotrimeric complex to the cell surface. Isoform 2 is probably
    non-functional

         Genatlas biochemistry entry for LTB:
    lymphotoxin beta,expressed in macrophages,,tumors necrosis factor (ligand) superfamily,member 3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005102receptor binding TAS7916655
    GO:0005125cytokine activity IEA--
    GO:0005164tumor necrosis factor receptor binding IEA--
    GO:0005515protein binding ----
         
    LTB for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for LTB:
     Decreased nuclei size in G2M 

         12 MGI mutant phenotypes (inferred from 7 alleles(MGI details for Ltb):
     cellular  digestive/alimentary  growth/size  hematopoietic system  homeostasis/metabolism 
     immune system  liver/biliary system  mortality/aging  nervous system  no phenotypic analysis 
     respiratory system  vision/eye 

    LTB for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-outs for LTB: Ltbtm1Kpf Ltbtm1Krn Ltb/Tnf/LtaLtb/Tnf/tm1Dvk Ltbtm1Flv Ltb/TnfLtb/tm1.1Dvk

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

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

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat LTB
    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate LTB
    SwitchGear 3'UTR luciferase reporter plasmidLTB 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for LTB
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    Gene Editing
    Products:
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    Sirion Biotech Customized adenovirus for overexpression of LTB

    Clone
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    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for LTB (see all 10)
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    GenScript: all cDNA clones in your preferred vector (see all 2): LTB (NM_007097)
    Sino Biological Human cDNA Clone for LTB
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for LTB
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LTB
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                         Customized lentivirus expression plasmids for stable overexpression of LTB 

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LTB


    (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 LTB About   (see all 9)                                                                                              See pathways by source

    SuperPathContained pathways About
    1TNF Signaling
    TNF Superfamily - Human Ligand-Receptor Interactions & their Associated Functions0.49
    NF-kB (NFkB) Pathway0.46
    2Apoptosis and survival Lymphotoxin-beta receptor signaling
    Apoptosis and survival Lymphotoxin-beta receptor signaling0.46
    LT-BetaR Pathway0.46
    3NF-KappaB Family Pathway
    NF-KappaB Family Pathway0.72
    4PEDF Induced Signaling
    Cytokine-cytokine receptor interaction0.43
    5TRAF Pathway
    TNF Superfamily Pathway0.42

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 EMD Millipore Pathway for LTB
        Apoptosis and survival Lymphotoxin-beta receptor signaling

    1 R&D Systems Pathway for LTB
        TNF Superfamily - Human Ligand-Receptor Interactions & their Associated Functions

    4 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for LTB
        LT-BetaR Pathway
    OX40 Pathway
    TNF Superfamily Pathway
    NF-KappaB Family Pathway

    1 GeneGo (Thomson Reuters) Pathway for LTB
        Apoptosis and survival Lymphotoxin-beta receptor signaling

    1 BioSystems Pathway for LTB
        Spinal Cord Injury

    1 Sino Biological Pathway for LTB 
        NF-kB (NFkB) Pathway


    3         Kegg Pathways  (Kegg details for LTB):
        Cytokine-cytokine receptor interaction
    NF-kappa B signaling pathway
    Rheumatoid arthritis


    LTB for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for LTB

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

    5/8 Interacting proteins for LTB (Q066433 ENSP000004104814) via UniProtKB, MINT, STRING, and/or I2D (see all 8)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    LTAP013743, ENSP000004034954I2D: score=4 STRING: ENSP00000403495
    ENSG00000230279P013743I2D: score=4 
    ENSG00000231408P013743I2D: score=4 
    TNFSF14O435573, ENSP000002459124I2D: score=2 STRING: ENSP00000245912
    LTBRP369413, ENSP000002289184I2D: score=3 STRING: ENSP00000228918
    About this table

    Gene Ontology (GO): 5/7 biological process terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006955immune response IEA--
    GO:0007165signal transduction TAS7916655
    GO:0007267cell-cell signaling TAS7916655
    GO:0010467gene expression IEA--
    GO:0043588skin development IEA--

    LTB 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

    LTB for compounds           About GeneDecksing

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

    Browse Tocris compounds for LTB (TNFC)

    1 HMDB Compound for LTB    About this table
    CompoundSynonyms CAS #PubMed Ids
    Simvastatin(+)-Simvastatin (see all 28)79902-63-9--

    2 Novoseek inferred chemical compound relationships for LTB gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    rantes 38.6 3 11818457 (1), 12828562 (1), 10544185 (1)
    cyclosporin a 0 5 12176893 (2), 7518925 (1)

    1 PharmGKB related drug/compound annotation for LTB gene    About this table
    Drug/compound PharmGKB Annotation
    abacavirCA  

    Search CenterWatch for drugs/clinical trials and news about LTB / TNFC

    (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 LTB gene (2 alternative transcripts): 
    NM_002341.1  NM_009588.1  

    Unigene Cluster for LTB:

    Lymphotoxin beta (TNF superfamily, member 3)
    Hs.376208  [show with all ESTs]
    Unigene Representative Sequence: AK095821
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000483972 ENST00000429299(uc003nuk.3) ENST00000446745(uc003nul.3)
    ENST00000482429
    miRNA
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    Inhib. RNA
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LTB

    Additional mRNA sequence: 

    AK095821.1 AK312210.1 BC055090.1 BC069330.1 BC093783.1 L11015.1 U79029.1 U89922.1 

    7 DOTS entries:

    DT.210387  DT.92422644  DT.99936177  DT.100743069  DT.95215874  DT.446271  DT.95281755 

    13 AceView cDNA sequences:

    AK095821 L11015 NM_002341 U79029 NM_009588 U89922 BC069330 BX095063 
    BC055090 AW978651 AA847198 BC018898 AA836521 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

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


    LTB expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/17 selected tissues (see all 17) fully expand
     
     Blood (Hematopoietic System)    fully expand to see all 10 entries
             Hematopoietic Stem Cells Hematopoietic Bone Marrow
             Peripheral blood Pan-T Cells   
     
     Epidermis (Integumentary System)    fully expand to see all 3 entries
             Periderm Cells Embryonic Epidermis
     
     Thymus (Hematopoietic System)    fully expand to see all 2 entries
             Double Positive Thymocytes Thymus
             Thymus   
     
     Lymph (Hematopoietic System)    fully expand to see all 2 entries
             LYMPH NODE   
     
     Umbilical Cord (Extraembryonic Tissues)    fully expand to see all 2 entries
             Cord Blood CD133- Cells   

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

    SOURCE GeneReport for Unigene cluster: Hs.376208

    UniProtKB/Swiss-Prot: TNFC_HUMAN, Q06643
    Tissue specificity: Spleen and thymus

        SABiosciences Expression via Pathway-Focused PCR Arrays including LTB (see all 9): 
              NFKB Signaling Targets in human mouse rat
              Inflammatory Response & Autoimmunity in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Inflammatory Cytokines & Receptors in human mouse rat
              Common Cytokines in human mouse rat

    Primer
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LTB
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LTB

    (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 human and mouse.

    Orthologs for LTB gene from 1/7 species (see all 7)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ltb1 , 5 lymphotoxin B1, 5 79.97(n)1
    74.7(a)1
      17 (18.59 cM)5
    169941  NM_008518.21  NP_032544.11 
     351944395 


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

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

    LTB 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

    10/123 SNPs in LTB are shown (see all 123)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 6 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1835175011,2
    --31547887(+) AGAGAA/GGCCTT 2 -- ds50010--------
    rs1386807401,2
    --31547999(+) TGGGCC/TCTGTA 2 -- ds50010--------
    rs1878782331,2
    --31548176(+) CAGAGA/GCAGGG 2 -- ds50010--------
    rs30935571,2
    C,F--31548196(-) GTCTGC/TCTGTC 2 -- ds50014Minor allele frequency- T:0.02NS WA 214
    rs46458461,2
    C,F,H--31548266(+) GAAGAG/CTACTG 2 -- ds50015Minor allele frequency- C:0.01NS EA 556
    rs7691751,2
    C,F,H--31548368(-) TGAAAA/GTAAAG 2 -- ut317Minor allele frequency- G:0.00NA NS MN EA 870
    rs30935561,2
    C,F,H--31548451(-) GAATAT/CTGGGG 2 -- ut3112Minor allele frequency- C:0.01NS EA WA EU 2385
    rs42481651,2
    C,F--31548528(+) CTCGCG/AAAGTC 3 /F syn1 ut313Minor allele frequency- A:0.00NS NA 4862
    rs1491398351,2
    F--31548586(+) GGAGCT/CGCACC 3 /Q /R mis1 ut311Minor allele frequency- C:0.00NA 4504
    rs22296991,2,4
    C,F,H--31548856(-) GGACGA/C/TCGAGG 5 D A V mis1 ut319MN NS EA 1172

    HapMap Linkage Disequilibrium report for LTB (31548302 - 31550299 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for LTB:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv830627CNV Loss17160897
    nsv884418CNV Gain21882294

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    (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: 600978    OMIM disorders: --

    20/33 diseases for LTB (see all 33):    About MalaCards
    chronic graft versus host disease    typhoid fever    synovitis    hepatitis c
    graft versus host disease    acute pancreatitis    diarrhea    non-hodgkin lymphoma
    encephalomyelitis    meningitis    crohn's disease    hodgkin's lymphoma
    cholera    sjogren's syndrome    malaria    chronic lymphocytic leukemia
    inflammatory bowel disease    hepatitis    muscular dystrophy    systemic lupus erythematosus

    1 disease from the University of Copenhagen DISEASES database for LTB:
    Cholera

    LTB for disorders           About GeneDecksing

    10 Novoseek inferred disease relationships for LTB gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    necrosis 58.5 15 9307242 (1), 12912866 (1), 15969671 (1), 10358762 (1) (see all 13)
    synovitis 40.3 1 15248211 (1)
    tumors 38.5 16 9299492 (2), 7995952 (1), 9307242 (1), 10358762 (1) (see all 13)
    herpes 25.6 1 10358762 (1)
    inflammation 18.1 4 18379788 (1), 18292573 (1), 11747624 (1)
    hepatitis c 16.3 1 12912866 (1)
    hepatitis c chronic 13.9 2 12912866 (1)
    lymphoma non-hodgkins 3.01 1 9299492 (1)
    leukemia 0 2 12801841 (1)
    liver diseases 0 2 12912866 (1)

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

    Export disorders for LTB 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 LTB gene, integrated from 9 sources (see all 108):
    (articles sorted by number of sources associating them with LTB)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Lymphotoxin beta, a novel member of the TNF family that forms a heteromeric complex with lymphotoxin on the cell surface. (PubMed id 7916655)1, 2, 3 Browning J.L.... Ware C.F. (1993)
    2. Identification of two lymphotoxin beta isoforms expressed in human lymphoid cell lines and non-Hodgkin's lymphomas. (PubMed id 9299492)1, 2, 9 Warzocha K....Salles G. (1997)
    3. Haplotype analysis of a 100 kb region spanning TNF-LTA identifies a polymorphism in the LTA promoter region that is associated with atopic asthma susceptibility in Japan. (PubMed id 15969671)1, 4, 9 Migita O....Arinami T. (2005)
    4. Lymphotoxin and an associated 33-kDa glycoprotein are expressed on the surface of an activated human T cell hybridoma. (PubMed id 1714477)1, 3, 9 Browning J.L....Ware C.F. (1991)
    5. Variation in inflammation-related genes and risk of incident nonfatal myocardial infarction or ischemic stroke. (PubMed id 17981284)1, 4, 9 Bis J.C....Psaty B.M. (2008)
    6. A study of the TNF/LTA/LTB locus and susceptibility t o severe malaria in highland papuan children and adults. (PubMed id 21029472)1, 4 Randall L.M....Engwerda C.R. (2010)
    7. Variation at the NFATC2 locus increases the risk of t hiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipr il and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (2010)
    8. Integrative predictive model of coronary artery calci fication in atherosclerosis. (PubMed id 19948975)1, 4 McGeachie M....Ramoni M.F. (2009)
    9. Genomewide association study of an AIDS-nonprogression cohort emphasizes the role played by HLA genes (ANRS Genomewide Association Study 02). (PubMed id 19115949)1, 4 Limou S....Zagury J.F. (2009)
    10. Candidate gene polymorphisms for ischemic stroke. (PubMed id 19729601)1, 4 Matarin M....Meschia J.F. (2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
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      Query String
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    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: 4050 HGNC: 6711 AceView: LTB Ensembl:ENSG00000227507 euGenes: HUgn4050
    ECgene: LTB Kegg: 4050 H-InvDB: LTB

    (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 LTB Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for LTB Genetics and Cytogenetics in Oncology and Haematology
    NIEHS-SNPshttp://egp.gs.washington.edu/data/ltb/
    SeattleSNPshttp://pga.gs.washington.edu/data/ltb/

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

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



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