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

LY96 Gene

protein-coding   GIFtS: 64
GCID: GC08P074953

lymphocyte antigen 96
 Explore 27 diseases affiliated with
LY96 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for LY96    

Aliases
for LY96 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Lymphocyte Antigen 961 2     Ly-963
MD-21 2     Myeloid Differentiation Protein-22
Protein MD-22 3     ESOP13
ESOP-12 3     Ly-963
MD22 3     

External Ids:    HGNC: 171561   Entrez Gene: 236432   Ensembl: ENSG000001545897   OMIM: 6052435   UniProtKB: Q9Y6Y93   

Export aliases for LY96 gene to outside databases

Previous GC identifers: GC08P074844 GC08P074626 GC08P075066 GC08P070394


Summaries
for LY96 gene

(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 LY96:
This gene encodes a protein which associates with toll-like receptor 4 on the cell surface and confers responsiveness
to lipopolysaccyaride (LPS), thus providing a link between the receptor and LPS signaling. Studies of the mouse
ortholog suggest that this gene may be involved in endotoxin neutralization. Alternative splicing results in multiple
transcript variants encoding different isoforms. (provided by RefSeq, Sep 2010)

UniProtKB/Swiss-Prot: LY96_HUMAN, Q9Y6Y9
Function: Cooperates with TLR4 in the innate immune response to bacterial lipopolysaccharide (LPS), and with TLR2 in
the response to cell wall components from Gram-positive and Gram-negative bacteria. Enhances TLR4-dependent activation
of NF-kappa-B. Cells expressing both MD2 and TLR4, but not TLR4 alone, respond to LPS

Gene Wiki entry for LY96 (Lymphocyte antigen 96)


Genomic Views
for LY96 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000008.10  NC_018919.1  NT_008183.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the LY96 gene promoter:
         TBP   STAT1   AP-1   ATF-2   IRF-1   STAT1alpha   MZF-1   c-Jun   Msx-1   MRF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: LY96 promoter sequence
   Search SABiosciences Chromatin IP Primers for LY96

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LY96


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

Entrez Gene cytogenetic band: 8q21.11   Ensembl cytogenetic band:  8q21.11   HGNC cytogenetic band: 8q13.3

LY96 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
LY96 gene location

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08P074953:  view genomic region     (about GC identifiers)

Start:
 74,903,587 bp from pter      End:
 74,941,322 bp from pter
Size:
 37,736 bases      Orientation:
 plus strand

Proteins
for LY96 gene

(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: LY96_HUMAN, Q9Y6Y9 (See protein sequence)
Recommended Name: Lymphocyte antigen 96 precursor  
Size: 160 amino acids; 18546 Da
Subunit: Heterogeneous homopolymer formed from homodimers; disulfide-linked. Belongs to the lipopolysaccharide (LPS)
receptor, a multi-protein complex containing at least CD14, LY96 and TLR4. Binds to the extracellular domains of TLR2
and TLR4. Ligand binding induces interaction with TLR4 and oligomerization of the complex
Subcellular location: Secreted, extracellular space
6/7 PDB 3D structures from and Proteopedia for LY96 (see all 7):
1T2Z (3D)        2E56 (3D)        2E59 (3D)        2Z65 (3D)        3FXI (3D)        3ULA (3D)    
Secondary accessions: B3Y6A5

Explore the universe of human proteins at neXtProt for LY96: NX_Q9Y6Y9

Post-translational modifications:

  • N-glycosylated; high-mannose1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9Y6Y9

    • LY96 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001182726.1  NP_056179.3  

    ENSEMBL proteins: 
     ENSP00000284818   ENSP00000430533  
    Reactome Protein details: Q9Y6Y9
    Human Recombinant Protein Products: 
    Browse Purified and Recombinant Proteins at EMD Millipore
    R&D Systems Recombinant & Natural Proteins for LY96 (MD-2)
    Browse recombinant and purified proteins available from Enzo Life Sciences
    OriGene Purified Protein: LY96
    OriGene Protein Over-expression Lysate: LY96
    OriGene Custom Protein Services for LY96 
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    Novus Biologicals LY96 Proteins
    Novus Biologicals LY96 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins
    Uscn Proteins for LY96

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005615extracellular space IEA--
    GO:0005886plasma membrane TAS--
    GO:0010008endosome membrane TAS--
    GO:0046696lipopolysaccharide receptor complex IDA19252480


    LY96 for ontologies           About GeneDecksing



    LY96 Antibody Products: 
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    Uscn Antibodies for LY96
    ThermoFisher Antibodies for LY96

    Assay Products for LY96: 
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    Uscn ELISAs and CLIAs for LY96

    Protein Domains /
    Families
    for LY96 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    LY96 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR014756 Ig_E-set
     IPR003172 MD-2_lipid-recog

    Graphical View of Domain Structure for InterPro Entry Q9Y6Y9

    ProtoNet protein and cluster: Q9Y6Y9

    1 Blocks protein family: IPB003172 E1 protein and Def2/Der2 allergen


    Function
    for LY96 gene

    (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: LY96_HUMAN, Q9Y6Y9
    Function: Cooperates with TLR4 in the innate immune response to bacterial lipopolysaccharide (LPS), and with TLR2 in
    the response to cell wall components from Gram-positive and Gram-negative bacteria. Enhances TLR4-dependent activation
    of NF-kappa-B. Cells expressing both MD2 and TLR4, but not TLR4 alone, respond to LPS

    miRNA
    Products:            		Browse 3'-UTR reporter clones for miRNA target validation
    Browse MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat LY96
    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate LY96
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:            		Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for LY96 (see all 7)
    OriGene shRNA RFP: LY96
    OriGene siRNA: LY96
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat LY96

    Gene Editing
    Products:    		DNA2.0 Custom Protein Engineering Service for LY96

    Clone
    Products:             		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LY96 (see all 5)
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    OriGene custom cloning services – gene synthesis, subcloning, mutagenesis, variant library, vector shuttling 
    GenScript: all cDNA clones in your preferred vector (see all 2): LY96 (NM_015364)
    Sino Biological Human cDNA Clone for LY96
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LY96 

    Cell Line
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    In Situ Assay
    Products:       
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    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001875lipopolysaccharide receptor activity IDA19252480
    GO:0005515protein binding IPI17803912
    GO:0015026coreceptor activity TAS10359581


    LY96 for ontologies           About GeneDecksing


    2 GenomeRNAi human phenotypes for LY96:
     Elongated cells  Synthetic lethal with Ras 

    Animal Models:
         Mouse knock-out Ly96tm1Kmiy for LY96
         3 MGI mutant phenotypes (inferred from 1 allele) (MGI details for Ly96):
     cellular  hematopoietic system  immune system 

    LY96 for phenotypes           About GeneDecksing


    Pathways & Interactions
    for LY96 gene

    (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 - 5/17 super-pathways (see all 17) About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1TRAF6 Mediated Induction of proinflammatory cytokines
    8/10 pathways (see all 10)
    		Toll Like Receptor TLR1:TLR2 Cascade0.78
    		MyD88-independent cascade 0.72
    		Toll Like Receptor TLR6:TLR2 Cascade0.78
    		Toll Like Receptor 3 (TLR3) Cascade0.72
    		Toll Like Receptor 2 (TLR2) Cascade0.78
    		Activated TLR4 signalling0.63
    		MyD88:Mal cascade initiated on plasma membrane0.78
    		Toll Like Receptor 4 (TLR4) Cascade0.61
    2Auto ubiquitination of TRAF6 bound to the activated TLR complex
    		Auto ubiquitination of TRAF6 bound to the activated TLR complex1.00
    		Activation of IRF3/IRF7 mediated by TBK1/IKK epsilon0.62
    		Auto-ubiquitination of TRAF30.83
    		IKK complex recruitment mediated by RIP10.50
    		TRAF6 mediated induction of TAK1 complex0.73
    		TRIF-mediated programmed cell death0.40
    3Toll-like receptor signaling pathway
    		Toll-like receptor signaling pathway1.00
    		Toll-Like receptor Signaling Pathways0.51
    		Toll-like receptor signaling pathway0.97
    4Toll Comparative Pathway
    		Toll Comparative Pathway1.00
    		Immune response MIF in innate immunity response0.46
    		Immune response_MIF in innate immunity response0.46
    5Immune response_TLR3 and TLR4 induce TICAM1-specific signaling pathway
    		Immune response_TLR3 and TLR4 induce TICAM1-specific signaling pathway1.00
    		Immune response Role of TLRs 3 and 4 in cell antiviral response: TICAM1-specific signaling pathways0.91

    Pathway sources
    See GeneCards unified pathways
    Show all pathways

    4 EMD Millipore Pathways for LY96
        Transcription NF-kB signaling pathway
    Immune response Toll-like receptor (TLR) ligands and common TLR signaling pathway leading to cell proinflammatory response
    Immune response MIF in innate immunity response
    Immune response Role of TLRs 3 and 4 in cell antiviral response- TICAM1-specific signaling pathways

    2 R&D Systems Pathways for LY96
        A-beta Uptake & Degradation
    Toll-Like receptor Signaling Pathways

    5 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for LY96
        MIF Regulation of Innate Immune Cells
    Toll-Like Receptors Pathway
    Toll Comparative Pathway
    MIF Mediated Glucocorticoid Regulation
    MIF Action Through Endocytic Pathway

    5/8 GeneGo (Thomson Reuters) Pathways for LY96 (see all 8)
        Immune response TLR3 and TLR4 induce TICAM1-specific signaling pathway
    Immune response Bacterial infections in normal airways
    Immune response MIF in innate immunity response
    Immune response TLR signaling pathways
    Bacterial infections in CF airways

    2 BioSystems Pathways for LY96 
        Pathogenic Escherichia coli infection
    Toll-like receptor signaling pathway

    5/18        Reactome Pathways for LY96 (see all 18)
        Auto-ubiquitination of TRAF3
    IKK complex recruitment mediated by RIP1
    Toll Like Receptor 2 (TLR2) Cascade
    Toll Like Receptor TLR6:TLR2 Cascade
    Toll-Like Receptors Cascades


    4         Kegg Pathways  (Kegg details for LY96):
        Toll-like receptor signaling pathway
    Pathogenic Escherichia coli infection
    Pertussis
    Toxoplasmosis


    LY96 for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for LY96

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

    5/31 Interacting proteins for LY96 (Q9Y6Y91, 3 ENSP000002848184) via UniProtKB, MINT, STRING, and/or I2D (see all 31)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CALM1P621583I2D: score=1 
    CALM2P621583I2D: score=1 
    CALM3P621583I2D: score=1 
    TLR4O002061, 3, ENSP000003630894EBI-1539247,EBI-528701 I2D: score=6 STRING: ENSP00000363089
    S100A8P051093, ENSP000003577214I2D: score=1 STRING: ENSP00000357721
    About this table

    Gene Ontology (GO): 5/17 biological process terms (GO ID links to tree view) (see all 17):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0002224toll-like receptor signaling pathway TAS--
    GO:0002755MyD88-dependent toll-like receptor signaling pathway TAS--
    GO:0002756MyD88-independent toll-like receptor signaling pathway ----
    GO:0006954inflammatory response IEA--
    GO:0006968cellular defense response TAS10359581


    LY96 for ontologies           About GeneDecksing



    Drugs & Compounds
    for LY96 gene

    (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

    LY96 for compounds           About GeneDecksing

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

    Browse Tocris compounds for LY96

    2 DrugBank Compounds for LY96    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    3-Hydroxy-Myristic Acid-- --target--10592235
    MYRISTIC ACID-- --target--10592235

    5 Novoseek chemical compound relationships for LY96 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    lipoteichoic acid 75.4 12 12594207 (3), 11160242 (3), 11521063 (2)
    endotoxin 73.9 92 17977838 (7), 15949139 (5), 17934216 (4), 18519568 (3) (see all 23)
    peptidoglycan 63.9 8 11160242 (3), 11521063 (2), 15142865 (1)
    paclitaxel 23 57 18650420 (10), 12496426 (6), 11123270 (4), 14577846 (3)
    lipid 21.7 22 16407172 (6), 15373971 (3), 18606678 (2), 19252480 (2) (see all 7)

    Search CenterWatch for drugs/clinical trials and news about LY96 

    Transcripts
    for LY96 gene

    (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 LY96 gene (2 alternative transcripts): 
    NM_001195797.1  NM_015364.4  

    Unigene Cluster for LY96:

    Lymphocyte antigen 96
    Hs.726603  [show with all ESTs]
    Unigene Representative Sequence: BM918324
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000284818(uc003yad.3 uc022awb.1) ENST00000518893

    miRNA
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    Inhib. RNA
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    OriGene shRNA RFP: LY96
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    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat LY96
    Clone
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    GenScript: all cDNA clones in your preferred vector (see all 2): LY96 (NM_015364)
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    Primer
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LY96

    Additional cDNA sequence: 

    AB018549.1 AB446498.1 AF168121.1 BC020690.1 

    3 DOTS entries:

    DT.303326  DT.95080596  DT.95243711 

    18 AceView cDNA sequences:

    AI652240 AA825754 AA099571 AI424897 BC020690 BX282899 AF168121 NM_015364 
    AI656256 BU198898 BG435728 AW235398 AW055084 BG571597 AB018549 AV732918 
    BG618440 BM918324 

    GeneLoc Exon Structure


    Expression
    for LY96 gene

    (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

    LY96 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: AATCTTCCAA

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

    LY96 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 5 LifeMap Cells 
    NameCategory
    PureStem™ endothelial Progenitor 30-SM2-3 (Embryonic Progenitor Cell)Blood, Endothelium
    Human umbilical vein endothelial cells (HUVEC) (Primary Cell)Endothelium
    PureStem™ endothelial progenitor 30-SM2-1 (Embryonic Progenitor Cell)Endothelium
    PureStem™ endothelial progenitor RP1-MV2-18 (Embryonic Progenitor Cell)Endothelium
    PureStem™ progenitor SK17 (Embryonic Progenitor Cell)
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See LY96 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for LY96

    SOURCE GeneReport for Unigene cluster: Hs.726603
        SABiosciences Expression via Pathway-Focused PCR Arrays including LY96: 
              Innate & Adaptive Immune Responses in human mouse rat
              Toll-Like Receptor Signaling Pathway in human mouse rat
              Inflammatory Response & Autoimmunity in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Antibacterial Response in human mouse rat

    Primer
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LY96
    In Situ
    Assay Products:     
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LY96

    Orthologs
    for LY96 gene

    (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 LY96 gene from 2/7 species (see all 7)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Ly961 , 5 lymphocyte antigen 961, 5 75.62(n)1
    64.37(a)1    		   1 (5.10 cM)5
    170871  NM_016923.21  NP_058619.11 
     166884565 
    chicken
    (Gallus gallus)    		 Aves LY966
    		 Uncharacterized protein
    		 33(a)
    		 1 ↔ 1
    		 2(122832302-122838833)


    ENSEMBL Gene Tree for LY96 (if available)
    TreeFam Gene Tree for LY96 (if available) 

    Paralogs
    for LY96 gene

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

    Genomic Variants
    for LY96 gene

    (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

    10/735 NCBI SNPs in LY96 are shown (see all 735)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 8 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs169387541,2
    		C,F,H,--70393958(+) GGACCT/GAGGGA 1 -- us2k115Minor allele frequency- G:0.02NA NS EA 1574
    rs114659991,2
    		C,H,--70394824(+) GCGGAC/TGCTGC 1 -- int17Minor allele frequency- T:0.00NA EU NS EA 508
    rs169387551,2
    		C,F,H,--70395045(+) AGTTCT/CTCTTC 1 -- int1 trp320Minor allele frequency- C:0.20NA MN NS EA WA CSA 1326
    rs47384091,2
    		--70395673(+) TGTTTC/GTGTTT 1 -- int10--------
    rs1118299751,2
    		C,--70395981(+) GCCACTGTGTGTGT
    GTGTGTG    /-    TGTGT     		1 -- int11Minor allele frequency- -:0.50CSA 2
    rs100869761,2
    		C,--70396059(+) agtggC/Tgcgat 1 -- int11Minor allele frequency- T:0.50CSA 2
    rs101020141,2
    		C,--70396064(+) cgcgaG/Tttcgg 1 -- int11Minor allele frequency- T:0.50CSA 2
    rs47384101,2
    		--70396672(+) acgacC/Tgcctc 1 -- int10--------
    rs109576911,2
    		C,F,A,H,--70397638(+) AGTGTA/GTGTTT 1 -- int110Minor allele frequency- G:0.20NA WA CSA EA 508
    rs625093101,2
    		--70397926(+) GATTCC/TGGGCT 1 -- int12Minor allele frequency- T:0.06NA 122

    HapMap Linkage Disequilibrium report for LY96 (74903587 - 74941322 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 4 variations for LY96
         1 CNV: 95500
         3 Indels: 82644 95499 95501
    Human Gene Mutation Database (HGMD): LY96

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    Disorders / Diseases
    for LY96 gene

    (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.)
    About This Section
    LY96 for disorders           About GeneDecksing

    OMIM gene information: 605243    OMIM disorders: --

    20/27 diseases for LY96 (see all 27):    About MalaCards
    wound botulism    intestinal botulism    spastic hemiplegia    botulism
    irritable bowel syndrome    hemiplegia    chronic lymphocytic leukemia    lymphocytic leukemia
    kawasaki disease    acne    toxoplasmosis    sepsis
    vaginitis    gastritis    measles    spasticity
    meningitis    pneumonia    pertussis    gingivitis

    3 diseases from the University of Copenhagen DISEASES database for LY96:
    Neonatal abstinence syndrome     Intestinal botulism     Wound botulism

    10/12 Novoseek disease relationships for LY96 gene (see all 12)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    gram-negative bacterial infections 66 1 19109192 (1)
    sepsis 45.5 8 19209789 (2), 15328161 (2), 15656985 (1), 17203997 (1)
    shock septic 38.5 2 15328161 (2)
    inflammation 34.4 9 19109192 (1), 19710105 (1), 15328161 (1), 16547263 (1) (see all 5)
    necrosis 24.7 7 15109052 (1), 19824106 (1), 12032143 (1), 18650420 (1) (see all 5)
    inflammatory bowel diseases 21.2 3 19710105 (2), 16547263 (1)
    shock 8.51 3 15679844 (1), 20070394 (1), 11801686 (1)
    neck cancer 8.3 2 15289356 (1), 12591988 (1)
    infectious disease 6.11 1 12015453 (1)
    cancer 4.79 2 15057266 (1)

    Human Genome Epidemiology (HuGE) Navigator: LY96 (18 documents)

    Export disorders for LY96 gene to outside databases

    Publications
    for LY96 gene

    (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 LY96 gene, integrated from 9 sources (see all 237):
    (articles sorted by number of sources associating them with LY96)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. MD-2, a molecule that confers lipopolysaccharide responsiveness on Toll-like receptor 4. (PubMed id 10359581)1, 2, 3 Shimazu R....Kimoto M. (1999)
    2. MD-2 enables Toll-like receptor 2 (TLR2)-mediated responses to lipopolysaccharide and enhances TLR2-mediated responses to Gram- positive and Gram-negative bacteria and their cell wall components. (PubMed id 11160242)1, 2, 9 Dziarski R.... Gupta D. (2001)
    3. Decreased expression of Toll-like receptor-4 and MD-2 correlates with intestinal epithelial cell protection against dysregulated proinflammatory gene expression in response to bacterial lipopolysaccharide. (PubMed id 11466383)1, 3, 9 Abreu M.T....Arditi M. (2001)
    4. Crystal structures of human MD-2 and its complex with antiendotoxic lipid IVa. (PubMed id 17569869)1, 2, 9 Ohto U....Satow Y. (2007)
    5. Crystal structure of the TLR4-MD-2 complex with bound endotoxin antagonist Eritoran. (PubMed id 17803912)1, 2, 9 Kim H.M.... Lee J.-O. (2007)
    6. Natural selection in the TLR-related genes in the course of primate evolution. (PubMed id 18810425)1, 2, 9 Nakajima T....Kimura A. (2008)
    7. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    8. The role of disulfide bonds in the assembly and function of MD-2. (PubMed id 12642668)1, 2 Mullen G.E.D.... Segal D.M. (2003)
    9. Secreted MD-2 is a large polymeric protein that efficiently confers lipopolysaccharide sensitivity to Toll-like receptor 4. (PubMed id 11593030)1, 2 Visintin A.... Segal D.M. (2001)
    10. Molecular genetic analysis of an endotoxin nonresponder mutant cell line. A point mutation in a conserved region of MD-2 abolishes endotoxin-induced signaling. (PubMed id 11435474)1, 2 Schromm A.B.... Golenbock D.T. (2001)

    External Searches for LY96 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
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    Genome Databases showing LY96 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 23643 HGNC: 17156 AceView: LY96 Ensembl:ENSG00000154589 euGenes: HUgn23643
    ECgene: LY96 Kegg: 23643 H-InvDB: LY96

    Other Databases showing LY96 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing LY96 gene

    (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 LY96 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for LY96 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for LY96 gene:
    Search GeneIP for patents involving LY96

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