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SSX2B Gene

protein-coding   GIFtS: 37
GCID: GC0XP052797

Synovial Sarcoma, X Breakpoint 2B

  See 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
Synovial Sarcoma, X Breakpoint 2B1 2     HOM-MEL-402
Cancer/Testis Antigen 5.22 3     SSX2
Tumor Antigen HOM-MEL-402 3     Cancer/Testis Antigen Family 5, Member 2b2
CT5.22 3     Protein SSX22
Cancer/Testis Antigen Family 51     SSX2A3
Member 2b1     Synovial Sarcoma, X Breakpoint 23
CT5.2b2     

External Ids:    HGNC: 222631   Entrez Gene: 7278372   Ensembl: ENSG000001579507   UniProtKB: Q163853   

Export aliases for SSX2B gene to outside databases


(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 SSX2B Gene:
The product of this gene belongs to the family of highly homologous synovial sarcoma X (SSX) breakpoint proteins.
These proteins may function as transcriptional repressors. They are also capable of eliciting spontaneous humoral
and cellular immune responses in cancer patients, and are potentially useful targets in cancer vaccine-based
immunotherapy. This gene, and also the SSX1 and SSX4 family members, have been involved in t(X;18)(p11.2;q11.2)
translocations that are characteristically found in all synovial sarcomas. This translocation results in the
fusion of the synovial sarcoma translocation gene on chromosome 18 to one of the SSX genes on chromosome X. The
encoded hybrid proteins are likely responsible for transforming activity. Alternative splicing of this gene
results in multiple transcript variants. This gene also has an identical duplicate, GeneID: 6757, located about
45 kb upstream in the opposite orientation on chromosome X. (provided by RefSeq, Jul 2013)

GeneCards Summary for SSX2B Gene:
SSX2B (synovial sarcoma, X breakpoint 2B) is a protein-coding gene. Diseases associated with SSX2B include peroneal nerve paralysis, and intrahepatic cholangiocarcinoma. GO annotations related to this gene include nucleic acid binding. An important paralog of this gene is SSX5.

UniProtKB/Swiss-Prot: SSX2_HUMAN, Q16385
Function: Could act as a modulator of transcription




(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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Regulatory elements:
   Regulatory transcription factor binding sites in the SSX2B gene promoter:
         NCX/Ncx   CUTL1   LCR-F1   HNF-1A   C/EBPalpha   PPAR-gamma1   HNF-1   PPAR-gamma2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for SSX2B

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SSX2B


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

Entrez Gene cytogenetic band: Xp11.22   Ensembl cytogenetic band:  Xp11.22   HGNC cytogenetic band: Xp11.22

SSX2B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SSX2B gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP052797:  view genomic region     (about GC identifiers)

Start:
52,780,308 bp from pter      End:
52,790,617 bp from pter
Size:
10,310 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, 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, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: SSX2_HUMAN, Q16385 (See protein sequence)
Recommended Name: Protein SSX2  
Size: 188 amino acids; 21620 Da
Subunit: Interacts via its N-terminal region with RAB3IP and SSX2IP
Sequence caution: Sequence=AAB35674.1; Type=Erroneous initiation;
Secondary accessions: Q16404 Q5JS26 Q96IP7 Q9BU88
Alternative splicing: 2 isoforms:  Q16385-1   Q16385-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SSX2B: NX_Q16385

Explore proteomics data for SSX2B at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See SSX2B Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001157889.1  NP_001265630.1  NP_001265631.1  

    ENSEMBL proteins: 
     ENSP00000364665   ENSP00000276049  

    SSX2B 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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    4 InterPro protein domains:
     IPR003655 Krueppel-associated_box-rel
     IPR019041 SSXRD_motif
     IPR028804 SSX
     IPR001909 Krueppel-associated_box

    Graphical View of Domain Structure for InterPro Entry Q16385

    ProtoNet protein and cluster: Q16385

    1 Blocks protein domain: IPB001909 KRAB box

    UniProtKB/Swiss-Prot: SSX2_HUMAN, Q16385
    Similarity: Belongs to the SSX family
    Similarity: Contains 1 KRAB-related domain


    SSX2B 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: SSX2_HUMAN, Q16385
    Function: Could act as a modulator of transcription

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding IEA--
    GO:0005515protein binding IPI12007189
         
    SSX2B for ontologies           About GeneDecksing


    Animal Models:
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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
    SSX2_HUMAN, Q16385: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytoskeleton2
    cytosol2
    mitochondrion1
    peroxisome1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005634nucleus IDA--

    SSX2B 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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    SuperPaths for SSX2B About                                                                                                See pathways by source

    SuperPathContained pathways About
    1Transcriptional misregulation in cancer
    Transcriptional misregulation in cancer

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways



    1 Kegg Pathway  (Kegg details for SSX2B):
        Transcriptional misregulation in cancer


    SSX2B for pathways           About GeneDecksing

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SSX2B
    Interactions:

        Search GeneGlobe Interaction Network for SSX2B

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

    Selected Interacting proteins for SSX2B (Q163851, 3 ENSP000003646654) via UniProtKB, MINT, STRING, and/or I2D (see all 29)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SSX2IPQ9Y2D81, 3EBI-2210673,EBI-2212028 I2D: score=2 
    RAB3IPQ96QF0-21EBI-2210673,EBI-747865 I2D: score=2 
    RNF2Q994963I2D: score=1 
    SMARCA2P515313I2D: score=1 
    APCENSP000002574304STRING: ENSP00000257430
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated NAS7539744

    SSX2B 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 SSX2B (SSX2)



    (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,
    Conferences by KenesGroup, 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 SSX2B gene (3 alternative transcripts): 
    NM_001164417.2  NM_001278701.1  NM_001278702.1  

    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000375515(uc004drb.1) ENST00000276049(uc004dra.1) ENST00000288839

    miRNA
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    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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    SSX2B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    SSX2B Expression
    About this image

    SSX2B Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SSX2B Protein Expression

    UniProtKB/Swiss-Prot: SSX2_HUMAN, Q16385
    Tissue specificity: Expressed at high level in the testis. Expressed at low level in thyroid. Not detected in
    tonsil, colon, lung, spleen, prostate, kidney, striated and smooth muscles. Detected in rhabdomyosarcoma and
    fibrosarcoma cell lines. Not detected in mesenchymal and epithelial cell lines

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SSX2B

    (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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      --

    ENSEMBL Gene Tree for SSX2B (if available)
    TreeFam Gene Tree for SSX2B (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SSX2B gene
    SSX21 2  SSX52  SSX42  SSX72  SSX4B2  SSX12  SSX32  
    14 SIMAP similar genes for SSX2B using alignment to 1 protein entry:     SSX2_HUMAN:
    SSX10    SSX2    SSX3    SSX5    SSX9    SSX7
    SSX1    SSX6    SSX8    SSX4    SSX4B    SYT-SSX2
    SYT-SSX1    SSX-HSTT

    SSX2B 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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    5 SNPs for SSX2B    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs2019309291,2
    --52779764(+) TACTT-/AAGATT 1 -- us2k10--------
    rs2014224181,2
    --52789556(+) CACATA/CCCTGC 1 -- int10--------
    rs3694710741,2
    ----52790264(+) TATCCA/GGCACC 1 -- ut310--------
    rs1997491871,2
    ----52788631(+) GGTGGA/GGCAGT 1 -- int10--------
    rs3738492121,2
    ----52790419(+) CCACA-/CAACACA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for SSX2B (52780308 - 52790617 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for SSX2B:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2740170CNV Deletion23290073
    esv21492CNV Gain19812545
    nsv7446OTHER Inversion18451855

    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing SSX2B
    DNA2.0 Custom Variant and Variant Library Synthesis for SSX2B

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    UniProtKB/Swiss-Prot: SSX2_HUMAN, Q16385
  • Note=A chromosomal aberration involving SSX2 may be a cause of synovial sarcoma. Translocation
    t(X;18)(p11.2;q11.2). The translocation is specifically found in more than 80% of synovial sarcoma. The fusion
    products SSXT-SSX1 or SSXT-SSX2 are probably responsible for transforming activity. Heterogeneity in the position
    of the breakpoint can occur (low frequency)

  • 15 diseases for SSX2B:    About MalaCards
    peroneal nerve paralysis    intrahepatic cholangiocarcinoma    synovial sarcoma    congenital mesoblastic nephroma
    sarcoma    mesoblastic nephroma    tonsillitis    cholangiocarcinoma
    fibrosarcoma    rhabdomyosarcoma    multiple myeloma    thyroiditis
    melanoma    myeloma    prostatitis

    3 diseases from the University of Copenhagen DISEASES database for SSX2B:
    Synovial sarcoma     Peroneal nerve paralysis     Congenital mesoblastic nephroma

    SSX2B for disorders           About GeneDecksing


    Export disorders for SSX2B 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 SSX2B gene, integrated from 10 sources (see all 12):
    (articles sorted by number of sources associating them with SSX2B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (Nature 2005)
    2. 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)
    3. The cancer-related protein SSX2 interacts with the human homologue of a Ras-like GTPase interactor, RAB3IP, and a novel nuclear protein, SSX2IP. (PubMed id 12007189)1, 2 de Bruijn D.R.H....van Kessel A.G. (Genes Chromosomes Cancer 2002)
    4. Molecular diagnosis of synovial sarcoma and characterization of a variant SYT-SSX2 fusion transcript. (PubMed id 7495284)1, 2 Fligman I....Ladanyi M. (Am. J. Pathol. 1995)
    5. Identification of two alternative fusion genes, SYT-SSX1 and SYT- SSX2, in t(X;18)(p11.2;q11.2)-positive synovial sarcomas. (PubMed id 7655467)1, 2 de Leeuw B.... Geurts van Kessel A. (Hum. Mol. Genet. 1995)
    6. Fusion of SYT to two genes, SSX1 and SSX2, encoding proteins with homology to the Kruppel-associated box in human synovial sarcoma. (PubMed id 7539744)1, 2 Crew A.J.... Cooper C.S. (EMBO J. 1995)
    7. Identification of novel genes, SYT and SSX, involved in the t(X;18)(p11.2;q11.2) translocation found in human synovial sarcoma. (PubMed id 7951320)1, 2 Clark J.... Cooper C.S. (Nat. Genet. 1994)
    8. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. (PubMed id 16712791)1 Wang A.G....Kim N.S. (Biochem. Biophys. Res. Commun. 2006)
    9. The SSX gene family: characterization of 9 complete genes. (PubMed id 12216073)1 Gure A.O.... Chen Y.-T. (Int. J. Cancer 2002)
    10. 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)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 727837 HGNC: 22263 Ensembl:ENSG00000157950 euGenes: HUgn727837 ECgene: SSX2B Kegg: 727837
    H-InvDB: SSX2B

    (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 SSX2B Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for SSX2B 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 SSX2B gene:
    Search GeneIP for patents involving SSX2B

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    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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     Browse OriGene Antibodies   OriGene RNAi products in human, mouse, rat for SSX2B  
     Browse OriGene qPCR primer pairs and template standards   OriGene Protein Over-expression Lysate for SSX2B  
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     Block miRNA regulation of human, mouse, rat SSX2B using miScript Target Protectors SeqTarget long-range PCR primers for resequencing SSX2B
     DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SSX2B Predesigned siRNA for gene silencing in human, mouse, rat SSX2B
     QuantiFast Probe-based Assays in human, mouse, rat SSX2B QuantiTect SYBR Green Assays in human, mouse, rat SSX2B
     Custom PCR Arrays for SSX2B Search Chromatin IP Primers for SSX2B
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     Search Tocris compounds for SSX2B (SSX2)
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     Browse ESI BIO Cell Lines and PureStem Progenitors for SSX2B
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     Search ThermoFisher Antibodies for SSX2B
     Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SSX2B
     inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SSX2B
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