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

SCAND1 Gene

protein-coding   GIFtS: 52
GCID: GC20M034542

SCAN domain containing 1

(Previous name: SCAN domain-containing 1 )
 Explore 2 diseases affiliated with
SCAND1 via our new
 Human Malady Compendium 
Biological research products
for SCAND1
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
SCAN Domain Containing 11 2
SDP11 2 3
RAZ11 2
SCAN Domain-Containing 11 2
SCAN Domain-Containing Protein 12
SCAN-Related Protein RAZ12

External Ids:    HGNC: 105661   Entrez Gene: 512822   Ensembl: ENSG000001712227   OMIM: 6104165   UniProtKB: P570863   

Export aliases for SCAND1 gene to outside databases

Previous GC identifers: GC20M034231 GC20M035209 GC20M035256 GC20M034004 GC20M031319


(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 SCAND1:
This gene encodes a SCAN box domain-containing protein. The SCAN domain is a highly conserved, leucine-rich motif of
approximately 60 aa originally found within a subfamily of zinc finger proteins. This gene belongs to a family of
genes that encode an isolated SCAN domain, but no zinc finger motif. This protein binds to and may regulate the
function of the transcription factor myeloid zinc finger 1B. Alternate splicing results in multiple transcript
variants.(provided by RefSeq, Jan 2011)

UniProtKB/Swiss-Prot: SCND1_HUMAN, P57086
Function: May regulate transcriptional activity

Gene Wiki entry for SCAND1


(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_000020.10  NC_018931.1  NT_011362.10  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SCAND1 gene promoter:
         p300   MyoD   Olf-1   LUN-1   STAT5A   Cdc5   c-Ets-1   GATA-1   S8   Zic3   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): SCAND1 promoter sequence
   Search SABiosciences Chromatin IP Primers for SCAND1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SCAND1


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

Entrez Gene cytogenetic band: 20q11.1-q11.23   Ensembl cytogenetic band:  20q11.23   HGNC cytogenetic band: 20q11.1-q11.23

SCAND1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SCAND1 gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20M034542:  view genomic region     (about GC identifiers)

Start:
34,541,539 bp from pter      End:
34,547,394 bp from pter
Size:
5,856 bases      Orientation:
minus strand

(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: SCND1_HUMAN, P57086 (See protein sequence)
Recommended Name: SCAN domain-containing protein 1  
Size: 179 amino acids; 19082 Da
Subunit: Interacts with ZNF202
Subcellular location: Nucleus (Potential)
Secondary accessions: Q6IAG7

Explore the universe of human proteins at neXtProt for SCAND1: NX_P57086

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P57086

  • SCAND1 Protein expression data from MOPED and PaxDb:    About this image 
    SCAND1 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_057642.1  NP_361012.2  

    ENSEMBL proteins: 
     ENSP00000301995   ENSP00000363103  

    Human Recombinant Protein Products for SCAND1: 
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    ProSpec Recombinant Protein for SCAND1
    Uscn Proteins for SCAND1

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--

    SCAND1 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for SCAND1


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

    SCAND1 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR008916 Retrov_capsid_C
     IPR003309 Tscrpt_reg_SCAN

    Graphical View of Domain Structure for InterPro Entry P57086

    ProtoNet protein and cluster: P57086

    1 Blocks protein family: IPB003309 Transcriptional regulator SCAN

    UniProtKB/Swiss-Prot: SCND1_HUMAN, P57086
    Similarity: Contains 1 SCAN box domain


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SCND1_HUMAN, P57086
    Function: May regulate transcriptional activity

         Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003700sequence-specific DNA binding transcription factor activity ISS--
    GO:0003713transcription coactivator activity IEA--
    GO:0042802identical protein binding ISS--
         
    SCAND1 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SCAND1:
     Upregulation of Wnt/beta-caten 

    Animal Models:
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for SCAND1 

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCAND1


    (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



    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SCAND1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 13)

    5/24 Interacting proteins for SCAND1 (P570862, 3 ENSP000003019954) via UniProtKB, MINT, STRING, and/or I2D (see all 24)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ZSCAN20P170402, 3, ENSP000003244504MINT-66729 I2D: score=4 STRING: ENSP00000324450
    ZNF24P170282, 3, ENSP000002613324MINT-68125 I2D: score=4 STRING: ENSP00000261332
    ZNF263O149782, 3, ENSP000002190694MINT-67660 I2D: score=4 STRING: ENSP00000219069
    MAPK8P459832, 3, ENSP000003534834MINT-8262352 I2D: score=2 STRING: ENSP00000353483
    MAPK3P273612, 3, ENSP000002630254MINT-8260614 I2D: score=2 STRING: ENSP00000263025
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006355regulation of transcription, DNA-dependent ----
    GO:0016032viral reproduction IEA--

    SCAND1 for ontologies           About GeneDecksing



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

    Browse Tocris compounds for SCAND1
    Search CenterWatch for drugs/clinical trials and news about SCAND1 / SCND1 

    (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, Sirion Biotech, 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 SCAND1 gene (2 alternative transcripts): 
    NM_016558.3  NM_033630.2  

    Unigene Cluster for SCAND1:

    SCAN domain containing 1
    Hs.584909  [show with all ESTs]
    Unigene Representative Sequence: BC041022
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000305978(uc002xen.2 uc021wct.1) ENST00000373991(uc002xep.3)


    miRNA
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    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate SCAND1
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    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 SCAND1 (see all 7)
    OriGene shRNA RFP: SCAND1
    OriGene siRNA: SCAND1
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    Sirion Biotech Custom design and validation of potent shRNA sequences against SCAND1 
    Clone
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    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SCAND1 (see all 4)
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    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SCAND1
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    Additional cDNA sequence: 

    AF204271.1 AF207829.1 BC000785.2 BC036709.2 BC041022.1 CR457188.1 

    11 DOTS entries:

    DT.454410  DT.100789185  DT.100037558  DT.120832145  DT.120832199  DT.100685255  DT.120832123  DT.120832133 
    DT.410463  DT.92062250  DT.92435083 

    24/311 AceView cDNA sequences (see all 311):

    AA482612 BQ935196 BC036709 AI423878 BU541091 AI421930 AA330415 CA425177 
    AI086418 BM553210 AI560440 BU683092 BF432422 BM790963 BE858433 BQ935298 
    BM716023 CA432619 BU521381 AI739092 BM559063 CA415189 BU737900 NM_016558 

    GeneLoc Exon Structure


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

    SCAND1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ATCGGGCCCG
    SCAND1 Expression
    About this image
    See SCAND1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SCAND1

    SOURCE GeneReport for Unigene cluster: Hs.584909
        SABiosciences Custom PCR Arrays for SCAND1

    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCAND1

    (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 SCAND1 gene from 1/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    (see all 37)
    --
    8(a)
    8(a)
    (see all 37)
    many ↔ many
    many ↔ many
    (see all 37)
    GL343330.1(962392-968070)
    2(196762678-196767722)


    ENSEMBL Gene Tree for SCAND1 (if available)
    TreeFam Gene Tree for SCAND1 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SCAND1 gene
    ZSCAN322  ZKSCAN22  ZSCAN202  ZSCAN292  
    18/42 SIMAP similar genes for SCAND1 using alignment to 2 protein entries:     SCND1_HUMAN (see all proteins) (see all similar genes):
    RAZ1    ZSCAN29    ZKSCAN5    ZNF202    ZNF449    ZSCAN30
    DKFZp451F083    ZNF75D    ZKSCAN8    SCAND3    ZNF397    ZNF24
    ZNF197    ZNF213    ZNF396    ZSCAN20    ZSCAN31    ZSCAN9

    SCAND1 for paralogs           About GeneDecksing



    (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

    10/73 NCBI SNPs in SCAND1 are shown (see all 73    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 20 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1510509581,2
    --34541110(+) GCAAGA/GAAGTT 2 -- ds50010--------
    rs1831068701,2
    --34541118(+) GTTGAC/GCAAGC 2 -- ds50010--------
    rs358921921,2
    C--34541165(+) ATCTCTG/-TGAAG 2 -- ds50011Minor allele frequency- -:0.50NA 2
    rs1157256081,2
    --34541184(+) GTAAAC/TACTTC 2 -- ds50011Minor allele frequency- T:0.01WA 118
    rs126254211,2
    C,F,H--34541290(+) TAAGTG/AAGCAT 2 -- ds50018Minor allele frequency- A:0.01NS EA NA 754
    rs762204081,2
    F--34541345(+) CTTGGG/AAGCCC 2 -- ds50011Minor allele frequency- A:0.03WA 118
    rs1179971081,2
    --34541390(+) ACCTAG/CGTTCA 2 -- ds50011Minor allele frequency- C:0.01EA 120
    rs31806801,2
    C--34541547(-) CAGCGC/ACTGTG 2 -- ut312Minor allele frequency- A:0.00NA 4
    rs115382351,2
    C--34541635(+) CAGAGA/CGCCCG 2 -- ut310--------
    rs61196821,2
    C--34541644(+) CGGCCC/TTGGCC 2 -- ut31 ese31Minor allele frequency- T:0.50CSA 2

    HapMap Linkage Disequilibrium report for SCAND1 (34541539 - 34547394 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for SCAND1
         1 CNV: 5135

    SABiosciences Cancer Mutation PCR Assays
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    DNA2.0 Custom Variant and Variant Library Synthesis for SCAND1

    (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.)
    About This Section

    SCAND1 for disorders           About GeneDecksing

    OMIM gene information: 610416    OMIM disorders: --

    2 diseases for SCAND1:    About MalaCards
    pneumothorax    cholesterol

    Human Genome Epidemiology (HuGE) Navigator: SCAND1 (1 document)

    Export disorders for SCAND1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SCAND1 gene, integrated from 9 sources (see all 18):
    (articles sorted by number of sources associating them with SCAND1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The SCAN domain mediates selective oligomerization. (PubMed id 10747874)1, 2, 3 Schumacher C....Wagner S. (2000)
    2. Identification of a novel SCAN box-related protein that interacts with MZF1B. The leucine-rich SCAN box mediates hetero- and homoprotein associations. (PubMed id 10777584)1, 3, 9 Sander T.L.... Morris J.F. (2000)
    3. 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)
    4. SDP1 is a peroxisome-proliferator-activated receptor gamma 2 co-activator that binds through its SCAN domain. (PubMed id 12444922)1, 3 Babb R. and Bowen B.R. (2003)
    5. The DNA sequence and comparative analysis of human chromosome 20. (PubMed id 11780052)1, 2 Deloukas P....Rogers J. (2001)
    6. Characterization of the SCAN box encoding RAZ1 gene: analysis of cDNA transcripts, expression, and cellular localization. (PubMed id 12383503)1, 9 Sander T.L. and Morris J.F. (2002)
    7. A directed protein interaction network for investigat ing intracellular signal transduction. (PubMed id 21900206)1 Vinayagam A....Wanker E.E. (2011)
    8. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    9. An atlas of combinatorial transcriptional regulation in mouse and man. (PubMed id 20211142)1 Ravasi T....Hayashizaki Y. (2010)
    10. Multiple genetic variants along candidate pathways influence plasma high-density lipoprotein cholesterol concentrations. (PubMed id 18660489)1 Lu Y....Boer J.M. (2008)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    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)
    About This Section
    Entrez Gene: 51282 HGNC: 10566 AceView: SCAND1 Ensembl:ENSG00000171222 euGenes: HUgn51282
    ECgene: SCAND1 H-InvDB: SCAND1

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SCAND1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SCAND1 gene:
    Search GeneIP for patents involving SCAND1

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    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory)
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    Sirion Biotech Customized:
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 27 Apr 2013 , 14 May 2013

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