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H1FOO Gene

protein-coding   GIFtS: 50
GCID: GC03P129262

H1 Histone Family, Member O, Oocyte-Specific

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(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
H1 Histone Family, Member O, Oocyte-Specific1 2     Histone H1oo2
Oocyte-Specific Histone H12 3     H1OO3
Oocyte-Specific Linker Histone H12 3     OSH13
osH12 3     

External Ids:    HGNC: 184631   Entrez Gene: 1322432   Ensembl: ENSG000001788047   UniProtKB: Q8IZA33   

Export aliases for H1FOO gene to outside databases

Previous GC identifers: GC03P130543 GC03P130582 GC03P130744 GC03P126645


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for H1FOO Gene:
Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in
eukaryotes. Nucleosomes consist of approximately 146 bp of DNA wrapped around a histone octamer composed of pairs
of each of the four core histones (H2A, H2B, H3, and H4). The chromatin fiber is further compacted through the
interaction of a linker histone, H1, with the DNA between the nucleosomes to form higher order chromatin
structures. The protein encoded is a member of the histone H1 family. This gene contains introns, unlike most
histone genes. The protein encoded is a member of the histone H1 family. The related mouse gene is expressed only
in oocytes. (provided by RefSeq, Jul 2008)

GeneCards Summary for H1FOO Gene:
H1FOO (H1 histone family, member O, oocyte-specific) is a protein-coding gene.

UniProtKB/Swiss-Prot: H1FOO_HUMAN, Q8IZA3
Function: May play a key role in the control of gene expression during oogenesis and early embryogenesis,
presumably through the perturbation of chromatin structure. Essential for meiotic maturation of germinal
vesicle-stage oocytes. The somatic type linker histone H1c is rapidly replaced by H1oo in a donor nucleus
transplanted into an oocyte. The greater mobility of H1oo as compared to H1c may contribute to this rapid
replacement and increased instability of the embryonic chromatin structure. The rapid replacement of H1c with
H1oo may play an important role in nuclear remodeling (By similarity)

Gene Wiki entry for H1FOO 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_000003.11  NT_005612.17  NC_018914.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the H1FOO gene promoter:
         c-Fos   PPAR-gamma1   AP-1   HFH-1   c-Jun   NF-kappaB1   NF-kappaB   YY1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidH1FOO promoter sequence
   Search Chromatin IP Primers for H1FOO

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat H1FOO


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

Entrez Gene cytogenetic band: 3q22.1   Ensembl cytogenetic band:  3q22.1   HGNC cytogenetic band: 3q21.3

H1FOO Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
H1FOO gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P129262:  view genomic region     (about GC identifiers)

Start:
129,262,057 bp from pter      End:
129,270,310 bp from pter
Size:
8,254 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: H1FOO_HUMAN, Q8IZA3 (See protein sequence)
Recommended Name: Histone H1oo  
Size: 346 amino acids; 35813 Da
Secondary accessions: Q86WT7
Alternative splicing: 2 isoforms:  Q8IZA3-1   Q8IZA3-2   

Explore the universe of human proteins at neXtProt for H1FOO: NX_Q8IZA3

Explore proteomics data for H1FOO at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See H1FOO Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_722575.1  
    ENSEMBL proteins: 
     ENSP00000319799   ENSP00000422964  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    RIH: Histones / Replication-independent

    2 InterPro protein domains:
     IPR011991 WHTH_DNA-bd_dom
     IPR005818 Histone_H1/H5_H15

    Graphical View of Domain Structure for InterPro Entry Q8IZA3

    ProtoNet protein and cluster: Q8IZA3

    1 Blocks protein domain: IPB005818 Histone H1/H5

    UniProtKB/Swiss-Prot: H1FOO_HUMAN, Q8IZA3
    Similarity: Belongs to the histone H1/H5 family
    Similarity: Contains 1 H15 (linker histone H1/H5 globular) domain


    Find genes that share domains with H1FOO           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: H1FOO_HUMAN, Q8IZA3
    Function: May play a key role in the control of gene expression during oogenesis and early embryogenesis,
    presumably through the perturbation of chromatin structure. Essential for meiotic maturation of germinal
    vesicle-stage oocytes. The somatic type linker histone H1c is rapidly replaced by H1oo in a donor nucleus
    transplanted into an oocyte. The greater mobility of H1oo as compared to H1c may contribute to this rapid
    replacement and increased instability of the embryonic chromatin structure. The rapid replacement of H1c with
    H1oo may play an important role in nuclear remodeling (By similarity)

         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
         
    Find genes that share ontologies with H1FOO           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for H1FOO:
     Decreased Wnt reporter activit 

         1 MGI mutant phenotype (inferred from 2 alleles(MGI details for H1foo):
     normal 

    Find genes that share phenotypes with H1FOO           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out H1footm1Eya for H1FOO

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for H1FOO
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    (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
    H1FOO_HUMAN, Q8IZA3: Cytoplasm (By similarity). Nucleus (By similarity). Chromosome (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus2

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000786nucleosome IEA--
    GO:0001674female germ cell nucleus IEA--
    GO:0005634nucleus ----
    GO:0005737cytoplasm IEA--
    GO:0070062extracellular vesicular exosome IDA19056867

    Find genes that share ontologies with H1FOO           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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    SuperPaths for H1FOO About    
    See pathways by source

    SuperPathContained pathways About
    1Activation of the pre-replicative complex
    Cell cycle Start of DNA replication in early S phase0.53
    2Packaging Of Telomere Ends
    Histone modification0.31
    3Cell cycle Chromosome condensation in prometaphase
    Cell cycle Chromosome condensation in prometaphase

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    2 GeneGo (Thomson Reuters) Pathways for H1FOO
        Cell cycle Chromosome condensation in prometaphase
    Cell cycle Start of DNA replication in early S phase


        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for H1FOO
    Interactions:

        Search GeneGlobe Interaction Network for H1FOO

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

    5 Interacting proteins for H1FOO (ENSP000003197994) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CHEK2ENSP000003720234STRING: ENSP00000372023
    SUPT16HENSP000002162974STRING: ENSP00000216297
    H2AFVENSP000003084054STRING: ENSP00000308405
    H2AFZENSP000002964174STRING: ENSP00000296417
    INO80ENSP000003552054STRING: ENSP00000355205
    About this table

    Gene Ontology (GO): 2 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006334nucleosome assembly IEA--
    GO:0007126meiotic nuclear division IEA--

    Find genes that share ontologies with H1FOO           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 H1FOO



    (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 H1FOO gene: 
    NM_153833.1  

    Unigene Cluster for H1FOO:

    H1 histone family, member O, oocyte-specific
    Hs.97358  [show with all ESTs]
    Unigene Representative Sequence: BM564157
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000324382(uc003emu.3) ENST00000503977(uc003emv.3)
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      QuantiFast Probe-based Assays in human, mouse, rat H1FOO

    Additional mRNA sequence: 

    AY158091.1 BC047943.1 

    2 DOTS entries:

    DT.99997933  DT.40118992 

    6 AceView cDNA sequences:

    NM_153833 AY158091 BC047943 AA393036 BM564157 AA412165 

    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™, 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)
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    H1FOO expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    H1FOO Expression
    About this image


    H1FOO expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Ovary (Reproductive System)
             Secondary follicles
    H1FOO Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    H1FOO Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.97358

    UniProtKB/Swiss-Prot: H1FOO_HUMAN, Q8IZA3
    Tissue specificity: Oocyte-specific

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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 chordates.

    Orthologs for H1FOO gene from Selected species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia H1foo1 , 5 H1 histone family, member O, oocyte-specific1, 5 65.64(n)1
    52.22(a)1
      6 (53.72 cM)5
    1715061  NM_138311.21  NP_612184.11 
     1159449385 
    zebrafish
    (Danio rerio)
    Actinopterygii h1m6
    linker histone H1M
    23(a)
    1 ↔ 1
    Zv9_NA660(14113-19625) ENSDARG00000040344


    ENSEMBL Gene Tree for H1FOO (if available)
    TreeFam Gene Tree for H1FOO (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for H1FOO gene

    Find genes that share paralogs with H1FOO           About GenesLikeMe


    2 Pseudogenes.org Pseudogenes for H1FOO
    PGOHUM00000247863 PGOHUM00000237646


    (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 H1FOO (see all 289)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1130694611,2
    C--129260067(+) GCCTT-/CACA  
     
    /CACACA
    CACAC
    2 -- us2k1 cds11CSA 2
    rs629669621,2
    C--129260068(+) CACAC-/AC/C  
      A
    /CACA
    GCAAG
    1 -- us2k10--------
    rs341218041,2
    C--129260069(+) ACACA-/ACCACAC 1 -- us2k11Minor allele frequency- AC:0.50NA 2
    rs67706911,2
    C,F--129260169(+) tactgC/Tatact 1 -- us2k14Minor allele frequency- T:0.12WA NA EA 360
    rs19054431,2
    C,F,A,H--129260170(+) actgcG/Atacta 1 -- us2k116Minor allele frequency- A:0.40NS EA WA NA CSA 858
    rs1483575281,2
    --129260186(+) CTGTGC/TGAATA 1 -- us2k10--------
    rs1163281671,2
    F--129260214(+) TCACTC/TTCCAC 1 -- us2k11Minor allele frequency- T:0.03WA 118
    rs788521871,2
    C,F--129260385(+) TAAGGC/TGGCTA 1 -- us2k11Minor allele frequency- T:0.03EA 120
    rs1919890511,2
    --129260451(+) CTATTA/GATAGA 1 -- us2k10--------
    rs1838052531,2
    --129260459(+) AGACAC/GTTACA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for H1FOO (129262057 - 129270310 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for H1FOO:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv508953CNV Insertion20534489
    dgv5254n71CNV Loss21882294
    dgv5255n71CNV Loss21882294
    nsv522149CNV Loss19592680

    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, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    1 disease from the University of Copenhagen DISEASES database for H1FOO:
    Premature ovarian failure

    Find genes that share disorders with H1FOO           About GenesLikeMe

    Genetic Association Database (GAD): H1FOO

    Export disorders for H1FOO 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 H1FOO gene, integrated from 10 sources (see all 21):
    (articles sorted by number of sources associating them with H1FOO)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Structure and expression of the human oocyte-specific histone H1 gene elucidated by direct RT-nested PCR of a single oocyte. (PubMed id 12711322)1, 2, 9 Tanaka Y.... Yoshimura Y. (Biochem. Biophys. Res. Commun. 2003)
    2. The human and mouse replication-dependent histone genes. (PubMed id 12408966)1, 3 Marzluff W.F.... Maltais L.J. (Genomics 2002)
    3. Expression of human oocyte-specific linker histone protein and its incorporation into sperm chromatin during fertilization. (PubMed id 19147139)1 Mizusawa Y....Yoshimura Y. (Fertil. Steril. 2010)
    4. Large-scale proteomics and phosphoproteomics of urinary exosomes. (PubMed id 19056867)1 Gonzales P.A....Knepper M.A. (J. Am. Soc. Nephrol. 2009)
    5. H1FOO is coupled to the initiation of oocytic growth. (PubMed id 15371275)1 Tanaka M....Adashi E.Y. (Biol. Reprod. 2005)
    6. Rapid replacement of somatic linker histones with the oocyte-specific linker histone H1foo in nuclear transfer. (PubMed id 14729479)1 Teranishi T....Yoshimura Y. (Dev. Biol. 2004)
    7. Rapid H1 linker histone transitions following fertilization or somatic cell nuclear transfer: evidence for a uniform developmental program in mice. (PubMed id 14729478)1 Gao S....Latham K.E. (Dev. Biol. 2004)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    10. A rice homeobox gene, OSH1, is expressed before organ differentiation in a specific region during early embryogenesis. (PubMed id 8755613)9 Sato Y....Matsuoka M. (Proc. Natl. Acad. Sci. U.S.A. 1996)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 132243 HGNC: 18463 AceView: H1FOO Ensembl:ENSG00000178804 euGenes: HUgn132243
    ECgene: H1FOO H-InvDB: H1FOO

    (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 H1FOO Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for H1FOO gene:
    Search GeneIP for patents involving H1FOO

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



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