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S100A16 Gene

protein-coding   GIFtS: 51
GCID: GC01M153579

S100 Calcium Binding Protein A16

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

Quality score for the ORGUL clustered with this gene is 3

Aliases
S100 Calcium Binding Protein A161 2     S100 Calcium-Binding Protein A162 3
Aging-Associated Gene 13 Protein2 3     DT1P1A72
Protein S100-F2 3     Aging-Associated Protein 132
S100F2 3     Protein S100-A162

External Ids:    HGNC: 204411   Entrez Gene: 1405762   Ensembl: ENSG000001886437   UniProtKB: Q96FQ63   
ORGUL members:         

Export aliases for S100A16 gene to outside databases

Previous GC identifers: GC01M9A0123 GC01M9A0392 GC01M150393 GC01M151845 GC01M124942


(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 S100A16 Gene:
S100A16 (S100 calcium binding protein A16) is a protein-coding gene. Diseases associated with S100A16 include hepatocellular carcinoma. GO annotations related to this gene include protein homodimerization activity and calcium ion binding.

UniProtKB/Swiss-Prot: S10AG_HUMAN, Q96FQ6
Function: Calcium-binding protein. Binds one calcium ion per monomer

Gene Wiki entry for S100A16 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:
NC_000001.11  NT_004487.20  NC_018912.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the S100A16 gene promoter:
         Brachyury   MyoD   FOXD1   MIF-1   STAT5A   LCR-F1   AREB6   CREB   deltaCREB   Ik-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidS100A16 promoter sequence
   Search Chromatin IP Primers for S100A16

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat S100A16


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

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

S100A16 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
S100A16 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M153579:  view genomic region     (about GC identifiers)

Start:
153,579,362 bp from pter      End:
153,585,621 bp from pter
Size:
6,260 bases      Orientation:
minus 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, 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., 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: S10AG_HUMAN, Q96FQ6 (See protein sequence)
Recommended Name: Protein S100-A16  
Size: 103 amino acids; 11801 Da
Subunit: Homodimer
3 PDB 3D structures from and Proteopedia for S100A16:
2L50 (3D)        2L51 (3D)        3NXA (3D)    
Secondary accessions: A8K439 D3DV52 Q5RHS6

Explore the universe of human proteins at neXtProt for S100A16: NX_Q96FQ6

Explore proteomics data for S100A16 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See S100A16 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_525127.1  
    ENSEMBL proteins: 
     ENSP00000357693   ENSP00000357695   ENSP00000357692   ENSP00000357694  

    S100A16 Human Recombinant Protein Products:

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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:
    EFHAND: EF-hand domain containing
    S100: S100 calcium binding proteins

    5 InterPro protein domains:
     IPR011992 EF-hand-dom_pair
     IPR002048 EF_hand_dom
     IPR028485 S100-A16
     IPR018247 EF_Hand_1_Ca_BS
     IPR001751 S100/CaBP-9k_CS

    Graphical View of Domain Structure for InterPro Entry Q96FQ6

    ProtoNet protein and cluster: Q96FQ6

    1 Blocks protein domain: IPB001751 Calcium-binding protein

    UniProtKB/Swiss-Prot: S10AG_HUMAN, Q96FQ6
    Similarity: Belongs to the S-100 family
    Similarity: Contains 2 EF-hand domains


    S100A16 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,
    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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: S10AG_HUMAN, Q96FQ6
    Function: Calcium-binding protein. Binds one calcium ion per monomer

         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005509calcium ion binding IDA17030513
    GO:0042803protein homodimerization activity IPI17030513
    GO:0044822poly(A) RNA binding IDA--
         
    S100A16 for ontologies           About GeneDecksing


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for S100A16
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    miRNA
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    miRTarBase miRNAs that target S100A16:
    hsa-mir-1 (MIRT024074), hsa-mir-193b-3p (MIRT016530)

    Block miRNA regulation of human, mouse, rat S100A16 using miScript Target Protectors
    1 qRT-PCR Assays for microRNA that regulate S100A16:
    hsa-miR-4310
    SwitchGear 3'UTR luciferase reporter plasmidS100A16 3' UTR sequence
    Inhib. RNA
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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
    S10AG_HUMAN, Q96FQ6: Nucleus, nucleolus. Cytoplasm. Note=Primarily nucleolar. Translocates from the nucleolus to
    the cytoplasm in response to an increase of intracellular calcium levels
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol5
    nucleus5
    plasma membrane4
    cytoskeleton1
    extracellular1

    Gene Ontology (GO): Selected cellular component terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ----
    GO:0005730nucleolus IDA17030513
    GO:0005737cytoplasm IDA--
    GO:0005829cytosol IDA17030513
    GO:0005886plasma membrane IDA--

    S100A16 for ontologies           About GeneDecksing


    (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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for S100A16
    Interactions:

        Search GeneGlobe Interaction Network for S100A16

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for S100A16 (Q96FQ62, 3 ENSP000003576924) via UniProtKB, MINT, STRING, and/or I2D (see all 27)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    S100A14Q9HCY82, 3, ENSP000003404634MINT-68275 I2D: score=4 STRING: ENSP00000340463
    UCHL5Q9Y5K53, ENSP000003564254I2D: score=1 STRING: ENSP00000356425
    GABARAPL1Q9H0R83I2D: score=1 
    CERS2ENSP000002716884STRING: ENSP00000271688
    ECM1ENSP000003580434STRING: ENSP00000358043
    About this table

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0051592response to calcium ion IEA--

    S100A16 for ontologies           About GeneDecksing



    (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 S100A16 (S10AG)



    (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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for S100A16 gene: 
    NM_080388.1  

    Unigene Cluster for S100A16:

    S100 calcium binding protein A16
    Hs.515714  [show with all ESTs]
    Unigene Representative Sequence: BQ920362
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000368704 ENST00000368706(uc001fcd.1) ENST00000368703 ENST00000368705(uc001fcc.2)
    ENST00000474991
    miRNA
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    1 qRT-PCR Assays for microRNA that regulate S100A16:
    hsa-miR-4310
    SwitchGear 3'UTR luciferase reporter plasmidS100A16 3' UTR sequence
    Inhib. RNA
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      QuantiTect SYBR Green Assays in human, mouse, rat S100A16
      QuantiFast Probe-based Assays in human, mouse, rat S100A16

    Additional mRNA sequence: 

    AK290804.1 AY221961.1 AY762098.1 BC010541.1 BC019099.1 BC095462.1 U23859.1 U92985.1 

    12 DOTS entries:

    DT.95288033  DT.448132  DT.100788970  DT.91772678  DT.91772670  DT.95176495  DT.95176522  DT.100788973 
    DT.121450699  DT.75131082  DT.91941117  DT.95212076 

    Selected AceView cDNA sequences (see all 573):

    BU148491 AW954845 BQ006928 BM822712 BU149507 BQ646854 BG283795 BU193767 
    BM707853 AV646279 BC010541 BI767853 AI433430 BM450173 BI858715 BQ226241 
    CA489541 BQ675145 BM831077 BG681214 BU624543 AI206629 AA410673 AI573213 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for S100A16 (see all 7)    About this scheme

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


    ECgene alternative splicing isoforms for S100A16

    (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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    S100A16 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGCAGGAGCA
    S100A16 Expression
    About this image


    S100A16 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 7) fully expand
     
     Gut Tube (Gastrointestinal Tract)    fully expand to see all 2 entries
             Hindgut
     
     Germ Cells (Reproductive System)
             Primordial germ cell-like cells
     
     Ovary (Reproductive System)
             Ovarian Somatic Cells Ovigerous Cord
     
     Endothelium (Cardiovascular System)
             Extraembryonic Angioblasts Extraembryonic Capillary Plexus
     
     Extraembryonic Mesoderm (Extraembryonic Tissues)
             Extraembryonic Angioblasts Extraembryonic Capillary Plexus
    S100A16 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    S100A16 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.515714
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    In Situ
    Assay Products:
     

     
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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 S100A16 gene from Selected species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia S100a161 , 5 S100 calcium binding protein A161, 5 83.82(n)1
    84.47(a)1
      3 (39.25 cM)5
    678601  NM_026416.21  NP_080692.11 
     905372545 
    chicken
    (Gallus gallus)
    Aves S100A161 S100 calcium binding protein A16 73.05(n)
    68.09(a)
      100859094  XM_003642637.2  XP_003642685.1 
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.33272 Transcribed sequence with weak similarity to protein more 75.15(n)    BQ527127.1 


    ENSEMBL Gene Tree for S100A16 (if available)
    TreeFam Gene Tree for S100A16 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for S100A16 gene
    13 SIMAP similar genes for S100A16 using alignment to 1 protein entry:     S10AG_HUMAN:
    S100B    S100Z    S100A4    S100P    S100A13    S100A10
    S100A6    HRNR    S100A12    S100A2    S100A11    S100A14
    S100A8

    S100A16 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), 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 S100A16 (see all 158)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1164490051,2
    C,F--153578987(+) CTGTAC/GAGGGG 1 -- int11Minor allele frequency- G:0.03WA 118
    rs557677311,2
    C--153579068(+) AAAAA-/A/AA  
            
    GACTA
    1 -- int11NA 2
    rs285484771,2
    C--153579086(+) TGGTCC/GCTCTC 1 -- int12Minor allele frequency- G:0.00NA 4
    rs1808800301,2
    --153579109(+) AGTGAA/GGACTA 1 -- int10--------
    rs1385056391,2
    --153579459(+) CAACAA/GGAGGA 1 -- ut310--------
    rs1417280411,2
    C--153579817(+) TGAGA-/CCCCCC 1 -- ut310--------
    rs1159179751,2
    C,F--153579864(+) AGGGAC/ACCCAG 1 -- ut311Minor allele frequency- A:0.03WA 118
    rs2015957331,2
    --153580051(+) TTTGGC/GGATGG 2 P A mis10--------
    rs1473575461,2
    C,F--153580052(+) TTGGCG/AATGGG 2 /I syn12Minor allele frequency- A:0.00NA EU 5875
    rs2010042641,2
    --153580060(+) GGGGCC/TGGTGA 2 S G mis10--------

    HapMap Linkage Disequilibrium report for S100A16 (153579362 - 153585621 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for S100A16: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing S100A16
    DNA2.0 Custom Variant and Variant Library Synthesis for S100A16

    (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 for S100A16:    
    About MalaCards
    hepatocellular carcinoma


    S100A16 for disorders           About GeneDecksing


    Export disorders for S100A16 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 S100A16 gene, integrated from 10 sources (see all 22):
    (articles sorted by number of sources associating them with S100A16)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Structural characterization of human S100A16, a low-affinity calcium binder. (PubMed id 21046186)1, 2 Babini E....Parigi G. (J. Biol. Inorg. Chem. 2011)
    2. S100A16, a novel calcium-binding protein of the EF-hand superfamily. (PubMed id 17030513)1, 2 Sturchler E.... Heizmann C.W. (J. Biol. Chem. 2006)
    3. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
    4. 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)
    5. Mapping and characterization of novel (CAG)n repeat cDNAs from adult human brain derived by the oligo capture method. (PubMed id 9417904)1, 3 Reddy P.H.... Tagle D.A. (Genomics 1997)
    6. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (Cell 2012)
    7. The interaction between ubiquitin C-terminal hydrolase 37 and glucose-regulated protein 78 in hepatocellular carcinoma. (PubMed id 21800051)1 Fang Y....Shen X. (Mol. Cell. Biochem. 2012)
    8. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (BMC Syst. Biol. 2011)
    9. Systematic and quantitative assessment of the ubiquitin-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (Mol. Cell 2011)
    10. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (J. Biol. Chem. 2011)

    (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: 140576 HGNC: 20441 AceView: S100A16 Ensembl:ENSG00000188643 euGenes: HUgn140576
    ECgene: S100A16 H-InvDB: S100A16

    (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 S100A16 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    IP news from LifeMap Sciences, Inc.)
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    Patent Information for S100A16 gene:
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    GeneCards and IP:
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