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LCN2 Gene

protein-coding   GIFtS: 59
GCID: GC09P130911

Lipocalin 2

(Previous name: lipocalin 2 (oncogene 24p3))
  See LCN2-related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Lipocalin 21 2     siderocalin1
Oncogene 24p31 2 3     24p32
NGAL2 3 5     MSFI2
Neutrophil Gelatinase-Associated Lipocalin1 2     lipocalin-22
Siderocalin LCN22 3     Migration-Stimulating Factor Inhibitor2
25 KDa Alpha-2-Microglobulin-Related Subunit Of MMP-92 3     HNL3
p252 3     Lipocalin-23
Lipocalin 2 (Oncogene 24p3)1     

External Ids:    HGNC: 65261   Entrez Gene: 39342   Ensembl: ENSG000001483467   OMIM: 6001815   UniProtKB: P801883   

Export aliases for LCN2 gene to outside databases

Previous GC identifers: GC09P122026 GC09P122558 GC09P124365 GC09P126287 GC09P127991 GC09P129951 GC09P100525


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for LCN2 Gene:
LCN2 (lipocalin 2) is a protein-coding gene. Diseases associated with LCN2 include renovascular hypertension, and insulin resistance. GO annotations related to this gene include iron ion binding and protein homodimerization activity. An important paralog of this gene is LCN12.

UniProtKB/Swiss-Prot: NGAL_HUMAN, P80188
Function: Iron-trafficking protein involved in multiple processes such as apoptosis, innate immunity and renal
development. Binds iron through association with 2,5-dihydroxybenzoic acid (2,5-DHBA), a siderophore that shares
structural similarities with bacterial enterobactin, and delivers or removes iron from the cell, depending on the
context. Iron-bound form (holo-24p3) is internalized following binding to the SLC22A17 (24p3R) receptor, leading
to release of iron and subsequent increase of intracellular iron concentration. In contrast, association of the
iron-free form (apo-24p3) with the SLC22A17 (24p3R) receptor is followed by association with an intracellular
siderophore, iron chelation and iron transfer to the extracellular medium, thereby reducing intracellular iron
concentration. Involved in apoptosis due to interleukin-3 (IL3) deprivation: iron-loaded form increases
intracellular iron concentration without promoting apoptosis, while iron-free form decreases intracellular iron
levels, inducing expression of the proapoptotic protein BCL2L11/BIM, resulting in apoptosis. Involved in innate
immunity, possibly by sequestrating iron, leading to limit bacterial growth

Gene Wiki entry for LCN2 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000009.11  NC_018920.2  NT_008470.20  
Regulatory elements:
   Regulatory transcription factor binding sites in the LCN2 gene promoter:
         PPAR-gamma1   Tal-1   FOXO1a   STAT3   PPAR-gamma2   FOXO1   E47   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidLCN2 promoter sequence
   Search Chromatin IP Primers for LCN2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat LCN2


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

Entrez Gene cytogenetic band: 9q34   Ensembl cytogenetic band:  9q34.11   HGNC cytogenetic band: 9q34

LCN2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
LCN2 gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09P130911:  view genomic region     (about GC identifiers)

Start:
130,911,350 bp from pter      End:
130,915,734 bp from pter
Size:
4,385 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: NGAL_HUMAN, P80188 (See protein sequence)
Recommended Name: Neutrophil gelatinase-associated lipocalin precursor  
Size: 198 amino acids; 22588 Da
Subunit: Homodimer; disulfide-linked. Heterodimer; disulfide-linked with MMP9
Sequence caution: Sequence=CAI13824.1; Type=Erroneous gene model prediction;
Selected PDB 3D structures from and Proteopedia for LCN2 (see all 31):
1DFV (3D)        1L6M (3D)        1NGL (3D)        1QQS (3D)        1X71 (3D)        1X89 (3D)    
Secondary accessions: A6NII8 B4DWV4 B7ZAA2 P30150 Q5SYV9 Q5SYW0 Q6FGL5 Q92683
Alternative splicing: 2 isoforms:  P80188-1   P80188-2   

Explore the universe of human proteins at neXtProt for LCN2: NX_P80188

Explore proteomics data for LCN2 at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn85

  • See LCN2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_005555.2  
    ENSEMBL proteins: 
     ENSP00000362108   ENSP00000277480   ENSP00000362089   ENSP00000362104   ENSP00000441666  

    LCN2 Human Recombinant Protein Products:

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    Novus Biologicals LCN2 Proteins
    Novus Biologicals LCN2 Lysates
    Sino Biological Recombinant Protein for LCN2
    Sino Biological Cell Lysate for LCN2
    ProSpec Recombinant Protein for LCN2
    Browse Proteins at Cloud-Clone Corp.

     
    Search eBioscience for Proteins for LCN2 

    LCN2 Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of LCN2
    R&D Systems Antibodies for LCN2 (Lipocalin-2/NGAL)
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    Abcam antibodies for LCN2
    Browse Antibodies at Cloud-Clone Corp.
    ThermoFisher Antibodies for LCN2
    LSBio Antibodies in human, mouse, rat for LCN2

    LCN2 Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp.
    Browse CLIAs at Cloud-Clone Corp.
    Search eBioscience for ELISAs for LCN2 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    LCN: Lipocalins

    Selected InterPro protein domains (see all 6):
     IPR003087 N_gelatinase
     IPR022272 Lipocalin_CS
     IPR012674 Calycin
     IPR000566 Lipocln_cytosolic_FA-bd_dom
     IPR011038 Calycin-like

    Graphical View of Domain Structure for InterPro Entry P80188

    ProtoNet protein and cluster: P80188

    2 Blocks protein domains:
    IPB002345 Lipocalin signature
    IPB003087 Neutrophil gelatinase lipocalin signature


    UniProtKB/Swiss-Prot: NGAL_HUMAN, P80188
    Similarity: Belongs to the calycin superfamily. Lipocalin family


    Find genes that share domains with LCN2           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: NGAL_HUMAN, P80188
    Function: Iron-trafficking protein involved in multiple processes such as apoptosis, innate immunity and renal
    development. Binds iron through association with 2,5-dihydroxybenzoic acid (2,5-DHBA), a siderophore that shares
    structural similarities with bacterial enterobactin, and delivers or removes iron from the cell, depending on the
    context. Iron-bound form (holo-24p3) is internalized following binding to the SLC22A17 (24p3R) receptor, leading
    to release of iron and subsequent increase of intracellular iron concentration. In contrast, association of the
    iron-free form (apo-24p3) with the SLC22A17 (24p3R) receptor is followed by association with an intracellular
    siderophore, iron chelation and iron transfer to the extracellular medium, thereby reducing intracellular iron
    concentration. Involved in apoptosis due to interleukin-3 (IL3) deprivation: iron-loaded form increases
    intracellular iron concentration without promoting apoptosis, while iron-free form decreases intracellular iron
    levels, inducing expression of the proapoptotic protein BCL2L11/BIM, resulting in apoptosis. Involved in innate
    immunity, possibly by sequestrating iron, leading to limit bacterial growth
    Induction: Expression is activated by the oncoprotein BCR-ABL; BCR-ABL misregulates expression via the JAK/STAT
    pathway and binding of STAT5A to the promoter

         Genatlas biochemistry entry for LCN2:
    neutrophil gelatinase-associated lipocalin 2,25kDa,found at moderate levels,only in breast and lung,component of
    human tear (lipophilic ligand carrier protein superfamily,lipocalin family,Kernel group),modulator of
    inflammation,involved in the transport of hydrophobic ligands

         Gene Ontology (GO): Selected molecular function terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0002020protease binding IEA--
    GO:0005215transporter activity IEA--
    GO:0005506iron ion binding ISS--
    GO:0005515protein binding ----
    GO:0036094small molecule binding IEA--
         
    Find genes that share ontologies with LCN2           About GenesLikeMe


    Phenotypes:
         7 MGI mutant phenotypes (inferred from 3 alleles(MGI details for Lcn2):
     cellular  hematopoietic system  homeostasis/metabolism  immune system  mortality/aging 
     renal/urinary system  reproductive system 

    Find genes that share phenotypes with LCN2           About GenesLikeMe

    Animal Models:
         MGI mouse knock-outs for LCN2: Lcn2tm1Aade Lcn2tm1Mak Lcn2tm1Mrgr

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for LCN2
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for LCN2

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for LCN2
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for LCN2

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    hsa-miR-374b* hsa-miR-138
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat LCN2

    Gene Editing
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    GenScript: all cDNA clones in your preferred vector (see all 4): LCN2 (NM_004366)
    Sino Biological Human cDNA Clone for LCN2
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for LCN2
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LCN2
    Addgene plasmids for LCN2 

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    Flow Cytometry
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    eBioscience FlowRNA Probe Sets ( VA1-13502) for LCN2 


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    NGAL_HUMAN, P80188: Secreted. Note=Upon binding to the SLC22A17 (24p3R) receptor, it is internalized
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    extracellular5
    cytosol4
    cytoskeleton1
    endoplasmic reticulum1
    mitochondrion1
    nucleus1
    peroxisome1

    Gene Ontology (GO): 5 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region ISS--
    GO:0005615extracellular space IDA--
    GO:0005737cytoplasm ----
    GO:0005829cytosol IEA--
    GO:0070062extracellular vesicular exosome IDA19056867

    Find genes that share ontologies with LCN2           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    1 Downloadable PowerPoint Slide of GeneGlobe Pathway Central Maps for LCN2
        Alzheimers Disease Pathway



        Pathway & Disease-focused RT2 Profiler PCR Arrays including LCN2: 
              Nephrotoxicity in human mouse rat
              Osmotic Stress in human mouse rat
              Antibacterial Response in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for LCN2

    STRING Interaction Network Preview (showing 5 interactants - click image to see 6)

    Selected Interacting proteins for LCN2 (P801883 ENSP000002774804) via UniProtKB, MINT, STRING, and/or I2D (see all 7)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MMP2P082533, ENSP000002190704I2D: score=2 STRING: ENSP00000219070
    HGFP142103, ENSP000002223904I2D: score=1 STRING: ENSP00000222390
    MMP9P147803, ENSP000003614054I2D: score=3 STRING: ENSP00000361405
    LRP2P981643, ENSP000002638164I2D: score=2 STRING: ENSP00000263816
    SLC22A17Q8WUG53I2D: score=1 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 21):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006811ion transport IEA--
    GO:0006915apoptotic process ----
    GO:0006979response to oxidative stress ----
    GO:0009615response to virus IEA--
    GO:0009617response to bacterium ----

    Find genes that share ontologies with LCN2           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for LCN2 (NGAL)

    7 DrugBank Compounds for LCN2    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    2,3,-Dihydroxybenzoylserine-- 127658-43-9target--17139284 17016423 10592235
    Methyl Nonanoate (Ester)-- --target--17139284 17016423 10592235
    2,3-Dihydroxy-Benzoic Acid-- 303-38-8target--17139284 17016423
    Alpha-D-Mannose-- 3458-28-4target--17139284 17016423
    Carboxymycobactin S-- --target--17139284 17016423
    Carboxymycobactin T-- --target--17139284 17016423
    Trencam-3,2-Hopo-- --target--17139284 17016423

    Selected Novoseek inferred chemical compound relationships for LCN2 gene (see all 26)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    enterobactin 72.4 5 16848455 (2), 15328098 (1), 20086155 (1)
    creatinine 67.7 128 19249502 (7), 18925531 (5), 16772710 (5), 17901710 (4) (see all 55)
    iron 42.7 66 19549696 (6), 16775460 (4), 19152427 (4), 20502037 (3) (see all 18)
    turpentine 30 2 11058755 (1)
    tripeptide s 20.8 3 10684642 (2), 12453412 (1)
    n-formylmethionyl-leucylphenylalanine 14.6 1 10614782 (1)
    fatty acid 13.6 8 20518578 (1), 19475694 (1), 19947356 (1), 10684642 (1) (see all 8)
    fmlp 12.2 3 8946011 (1), 10572948 (1)
    neopterin 11.4 1 15958085 (1)
    estrogen 8.4 9 12183401 (2), 19237579 (1), 9842963 (1), 18079438 (1) (see all 6)



    Find genes that share compounds with LCN2           About GenesLikeMe



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for LCN2 gene: 
    NM_005564.3  

    Unigene Cluster for LCN2:

    Lipocalin 2
    Hs.204238  [show with all ESTs]
    Unigene Representative Sequence: AK307311
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000373017 ENST00000470902 ENST00000277480(uc004bto.1) ENST00000487719(uc010mxq.1)
    ENST00000372998 ENST00000488391 ENST00000494317 ENST00000373013 ENST00000540948(uc011map.1)

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    GenScript: all cDNA clones in your preferred vector (see all 4): LCN2 (NM_004366)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LCN2
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    Additional mRNA sequence: 

    AK301694.1 AK307311.1 AK316217.1 BC033089.1 CR542092.1 EU644752.1 S75256.1 X83006.1 

    10 DOTS entries:

    DT.448706  DT.95186017  DT.100807117  DT.219250  DT.92438005  DT.75122333  DT.101962231  DT.101966735 
    DT.95274087  DT.91852032 

    Selected AceView cDNA sequences (see all 356):

    BU163671 CA454137 BM785383 BQ880506 AA494293 BM761823 AA329732 BQ689640 
    AW085635 BQ686961 BM786151 BQ083353 BM766778 AI559933 AJ705280 BM789897 
    BU163647 T11089 BM820474 AJ713796 BU163221 BM850563 BQ690519 BX107907 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for LCN2 (see all 7)    About this scheme

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


    ECgene alternative splicing isoforms for LCN2

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

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    LCN2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGCCCTCAGG
    LCN2 Expression
    About this image


    LCN2 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 12) fully expand
     
     Bone (Muscoskeletal System)
             Bone Marrow
     
     Gonad
             Secondary Spermatocyte Seminiferous Tubules
     
     Testis (Reproductive System)
             Secondary Spermatocyte Seminiferous Tubules
     
     Endothelium (Cardiovascular System)
             Endothelial Cells Blood Brain Barrier
     
     Liver (Hepatobiliary System)
             Liver Lobule
    LCN2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    LCN2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.204238

    UniProtKB/Swiss-Prot: NGAL_HUMAN, P80188
    Tissue specificity: Expressed in bone marrow and in tissues that are prone to exposure to microorganism. High
    expression is found in bone marrow as well as in uterus, prostate, salivary gland, stomach, appendix, colon,
    trachea and lung. Not found in the small intestine or peripheral blood leukocytes

        Pathway & Disease-focused RT2 Profiler PCR Arrays including LCN2: 
              Nephrotoxicity in human mouse rat
              Osmotic Stress in human mouse rat
              Antibacterial Response in human mouse rat

    Primer
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of human and mouse.

    Orthologs for LCN2 gene from Selected species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Lcn21 , 5 lipocalin 21, 5 72.25(n)1
    63.13(a)1
      2 (22.09 cM)5
    168191  NM_008491.11  NP_032517.11 
     323846335 


    ENSEMBL Gene Tree for LCN2 (if available)
    TreeFam Gene Tree for LCN2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for LCN2 gene
    LCN122  
    2 SIMAP similar genes for LCN2 using alignment to 2 protein entries:     NGAL_HUMAN (see all proteins):
    NGAL    LCN12

    Find genes that share paralogs with LCN2           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for LCN2 (see all 196)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 9 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1411331291,2
    C--130909802(+) CTTCCC/TGAGTA 1 -- us2k10--------
    rs109878961,2
    C,A--130909826(+) GCATGC/TGCCAC 1 -- us2k10--------
    rs1897739791,2
    --130909850(+) TCTTTA/GTATTT 1 -- us2k10--------
    rs1824674781,2
    --130909861(+) TTACTA/GGAGAC 1 -- us2k10--------
    rs1380622301,2
    C--130909949(+) CTGGAA/GTTACA 1 -- us2k10--------
    rs1890781111,2
    --130909970(+) ACTGCA/GCCCAG 1 -- us2k10--------
    rs1495340481,2
    --130909971(+) CTGCGC/TCCAGC 1 -- us2k10--------
    rs1998978201,2
    --130909985(+) GGATA-/CCTTTT 1 -- us2k10--------
    rs1127549331,2
    C,F--130910014(+) AGAATA/C/GTCGCT 1 -- us2k12CSA WA 120
    rs1143225411,2
    C,F--130910038(+) AAGTGC/TAAAGG 1 -- us2k11Minor allele frequency- T:0.11WA 118

    HapMap Linkage Disequilibrium report for LCN2 (130911350 - 130915734 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for LCN2:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv8294n71CNV Loss21882294
    nsv893891CNV Loss21882294
    nsv893859CNV Loss21882294
    nsv893894CNV Gain21882294

    Site Specific Mutation Identification with PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 600181    OMIM disorders: --

    3 diseases for LCN2:    
    About MalaCards
    renovascular hypertension    insulin resistance    pancreatic cancer

    2 diseases from the University of Copenhagen DISEASES database for LCN2:
    Kidney disease     Vascular disease

    Find genes that share disorders with LCN2           About GenesLikeMe

    Selected Novoseek inferred disease relationships for LCN2 gene (see all 47)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    renal disease 59.6 51 18725016 (2), 18569973 (2), 17874137 (2), 20030526 (2) (see all 33)
    renal failure acute 49.3 6 17901710 (1), 19708926 (1), 16772710 (1), 19249501 (1) (see all 5)
    inflammation 45.5 44 19466389 (4), 10777108 (2), 20068352 (2), 11058768 (2) (see all 29)
    proteinuria 38.1 9 18955901 (4), 18951213 (1), 19961280 (1), 19176795 (1) (see all 5)
    response acute phase 29.3 3 12364884 (1), 16798734 (1)
    renal failure 21.8 6 17342180 (1), 19661117 (1), 20502037 (1), 15711640 (1) (see all 5)
    proctitis 21.6 7 11889070 (3), 12353856 (1)
    nephritis 21.4 5 16868980 (4), 20144927 (1)
    glomerulonephritis 21.1 2 18725016 (1), 18569973 (1)
    bronchoalveolar lavage fluid 19.2 3 10351949 (1), 11978925 (1), 18336743 (1)

    Genetic Association Database (GAD): LCN2
    Human Genome Epidemiology (HuGE) Navigator: LCN2 (2 documents)

    Export disorders for LCN2 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for LCN2 gene, integrated from 10 sources (see all 534):
    (articles sorted by number of sources associating them with LCN2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Isolation and primary structure of NGAL, a novel protein associated with human neutrophil gelatinase. (PubMed id 7683678)1, 2, 3, 9 Kjeldsen L.... Borregaard N. (J. Biol. Chem. 1993)
    2. Ligand preference inferred from the structure of neutrophil gelatinase associated lipocalin. (PubMed id 10684642)1, 2, 9 Goetz D.H....Strong R.K. (Biochemistry 2000)
    3. Molecular cloning and expression of a cDNA encoding NGAL: a lipocalin expressed in human neutrophils. (PubMed id 8060329)1, 2, 9 Bundgaard J.R.... Kjeldsen L. (Biochem. Biophys. Res. Commun. 1994)
    4. Evaluation of candidate stromal epithelial cross-talk genes identifies association between risk of serous ovarian cancer and TERT, a cancer susceptibility &quot;hot-spot&quot;. (PubMed id 20628624)1, 4 Johnatty S.E.... . (PLoS Genet. 2010)
    5. Examination of genetic polymorphisms in newborns for signatures of sex-specific prenatal selection. (PubMed id 20587610)1, 4 Ucisik-Akkaya E....Dorak M.T. (Mol. Hum. Reprod. 2010)
    6. Identification of N-linked glycoproteins in human saliva by glycoprotein capture and mass spectrometry. (PubMed id 16740002)1, 2 Ramachandran P....Loo J.A. (J. Proteome Res. 2006)
    7. Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry. (PubMed id 16335952)1, 2 Liu T.... Smith R.D. (J. Proteome Res. 2005)
    8. 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. (Genome Res. 2004)
    9. A proteomic analysis of human bile. (PubMed id 15084671)1, 2 Kristiansen T.Z.... Pandey A. (Mol. Cell. Proteomics 2004)
    10. The solution structure and dynamics of human neutrophil gelatinase- associated lipocalin. (PubMed id 10339412)1, 2 Coles M.... Kessler H. (J. Mol. Biol. 1999)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 3934 HGNC: 6526 AceView: LCN2 Ensembl:ENSG00000148346 euGenes: HUgn3934
    ECgene: LCN2 H-InvDB: LCN2

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for LCN2 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for LCN2 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for LCN2 gene:
    Search GeneIP for patents involving LCN2

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



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