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

SSX2 Gene

protein-coding   GIFtS: 50
GCID: GC0XM052725

synovial sarcoma, X breakpoint 2


(Previous symbol: SSX)
 Explore 26 diseases affiliated with
SSX2 via our new
 Human Malady Compendium 
Biological research products
for SSX2
    

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

Aliases
Synovial Sarcoma, X Breakpoint 21 2 3     MGC1190551
CT5.2a1 2     MGC153641
HD211 2     MGC38841
HOM-MEL-401 2     Cancer/Testis Antigen Family 5, Member 2a2
SSX1 2     Protein SSX22
Cancer/Testis Antigen 5.22 3     Sarcoma, Synovial, X-Chromosome-Related 22
Tumor Antigen HOM-MEL-402 3     Synovial Sarcoma, X Breakpoint 2B2
CT5.22 3     SSX2A3

External Ids:    HGNC: 113361   Entrez Gene: 67572   Ensembl: ENSG000002414767   OMIM: 3001925   UniProtKB: Q163853   

Export aliases for SSX2 gene to outside databases

Previous GC identifers: GC0XP043594 GC0XP050491 GC0XM051377 GC0XM051692 GC0XM052608 GC0XM052742 GC0XM052673 GC0XM049853


(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 SSX2:
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 spontaneously humoral and
cellular immune responses in cancer patients, and are potentially useful targets in cancer vaccine-based
immunotherapy. SSX1, SSX2 and SSX4 genes have been involved in the t(X;18) translocation 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 probably responsible for
transforming activity. Two transcript variants encoding distinct isoforms have been identified for this gene.
(provided by RefSeq, Jul 2008)

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

Gene Wiki entry for SSX2


(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_000023.10  NC_018934.1  NT_011630.14  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SSX2 gene promoter:
         C/EBPbeta   p53   NCX/Ncx   HNF-1A   C/EBPalpha   PPAR-gamma1   HNF-1   PPAR-gamma2   En-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSSX2 promoter sequence
   Search SABiosciences Chromatin IP Primers for SSX2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SSX2


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

SSX2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SSX2 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM052725:  view genomic region     (about GC identifiers)

Start:
52,725,946 bp from pter      End:
52,736,249 bp from pter
Size:
10,304 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: 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
Subcellular location: Nucleus
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 SSX2: NX_Q16385

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2 (SSX2)
  • View neXtProt modification sites for NX_Q16385

  • SSX2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_003138.3  NP_783629.1  

    ENSEMBL proteins: 
     ENSP00000338796   ENSP00000338561  

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    Uscn Proteins for SSX2

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

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


    SSX2 for ontologies           About GeneDecksing



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

    SSX2 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR003655 Krueppel-associated_box-rel
     IPR019041 SSXRD_motif
     IPR001909 Krueppel-associated_box

    Graphical View of Domain Structure for InterPro Entry Q16385

    ProtoNet protein and cluster: Q16385

    1 Blocks protein family: IPB001909 KRAB box

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


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

    Function Summary:

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

         Genatlas biochemistry entry for SSX2:
    protein SSX2 with homology to Kruppel associated box,KRAB,transcriptional corepressor,complexing with polycomb group
    (PcG) proteins RING1 or BMI1 and associating with chromatin,fused with SYT (SSXT) in synovial sarcoma with
    translocation t(X;18)(p11.2;q11.2) (see BSSX)

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0005515protein binding ----


    SSX2 for ontologies           About GeneDecksing



    (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 SSX2

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

    5/29 Interacting proteins for SSX2 (Q163851, 3 ENSP000003387964) via UniProtKB, MINT, STRING, and/or I2D (see all 29)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    RAB3IPQ96QF0-21, ENSP000003680864EBI-2210673,EBI-747865 I2D: score=2 STRING: ENSP00000368086
    SSX2IPQ9Y2D81, 3, ENSP000003402794EBI-2210673,EBI-2212028 I2D: score=2 STRING: ENSP00000340279
    RNF2Q994963I2D: score=1 
    SMARCA2P515313I2D: score=1 
    ADRA1DENSP000003687664STRING: ENSP00000368766
    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:0006351transcription, DNA-dependent ----
    GO:0006355regulation of transcription, DNA-dependent ----


    SSX2 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

    SSX2 for compounds           About GeneDecksing

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

    Browse Tocris compounds for SSX2
    3 Novoseek chemical compound relationships for SSX2 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    5-aza-2'deoxycytidine 47.2 1 10749136 (1)
    oligonucleotide 0 1 15747098 (1)
    zinc 0 1 7539744 (1)

    Search CenterWatch for drugs/clinical trials and news about SSX2 

    (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, 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 SSX2 gene (2 alternative transcripts): 
    NM_003147.4  NM_175698.1  

    Unigene Clusters for SSX2:

    Synovial sarcoma, X breakpoint 2
    Hs.289105  [show with all ESTs], Hs.661107  [show with all ESTs]
    Unigene Representative Sequences: NM_001164417, NM_003147
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000336777(uc004dqy.1) ENST00000337502(uc004dqz.1) ENST00000476392


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    Additional cDNA sequence: 

    AF190791.1 BC002818.2 BC007343.2 BC016957.1 BC069313.1 BC071827.1 BC103863.2 S79332.1 
    Z49105.1 Z49106.1 

    8 DOTS entries:

    DT.203018  DT.121314213  DT.92450034  DT.95157176  DT.113859  DT.121278319  DT.121278317  DT.121314214 

    24/41 AceView cDNA sequences (see all 41):

    AF190791 BC071827 NM_175698 CB158928 BC002818 X86175 BE378730 CB156144 
    NM_003147 CB158955 BC069313 BC007343 BI520165 Z49105 BG396977 BU194624 
    BQ231752 BE408978 BM806411 BC016957 CB144604 BQ222907 BU161779 AL040237 

    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

    SSX2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TACTCCCCTC

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See SSX2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SSX2

    SOURCE GeneReport for Unigene clusters: Hs.289105 Hs.661107

    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
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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)
    About This Section
      --

    ENSEMBL Gene Tree for SSX2 (if available)
    TreeFam Gene Tree for SSX2 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SSX2 gene
    SSX2B1 2  SSX62  SSX42  SSX72  SSX12  SSX52  SSX92  SSX4B2  
    SSX32  
    17 SIMAP similar genes for SSX2 using alignment to 3 protein entries:     SSX2_HUMAN (see all proteins):
    SS18/SSX2 fusion    SSX10    SSX2B    SSX6    SSX3    SSX9
    SS18/SSX1 fusion    SSX7    SSX11    SSX5    SYT-SSX2    SSX1
    SSX4    SSX4B    SSX8    SSX-HSTT    SYT-SSX1

    SSX2 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

    3 NCBI SNPs in SSX2 are shown     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs173554291,2
    F--52734233(-) GCCTCG/AGAGAA 4 /S syn11Minor allele frequency- A:0.22MN 184
    rs2006006931,2
    --52736792(+) GAATC-/TTAAGT 2 -- us2k10--------
    rs2017794261,2
    ----52732370(+) AACCTA/GTCTTT 2 -- int10--------

    HapMap Linkage Disequilibrium report for SSX2 (52725946 - 52736249 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 4 variations for SSX2
         3 CNVs: 83527 73978 96690
         1 Inversion: 37382

    SABiosciences Cancer Mutation PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SSX2
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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.)
    About This Section

    SSX2 for disorders           About GeneDecksing

    OMIM gene information: 300192    OMIM disorders: --

    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)

    20/26 diseases for SSX2 (see all 26):    About MalaCards
    synovial sarcoma    sarcoma    biphasic synovial sarcoma    spindle cell synovial sarcoma
    testicular germ cell tumor    germ cell tumor    testicular cancer    seminoma
    hemangiopericytoma    cutaneous t cell lymphoma    multiple myeloma    tonsillitis
    melanoma    fibrosarcoma    acute leukemia    myeloma
    rhabdomyosarcoma    hepatocellular carcinoma    esophageal cancer    esophagitis

    2 diseases from the University of Copenhagen DISEASES database for SSX2:
    Kidney hemangiopericytoma     Synovial sarcoma

    10/11 Novoseek disease relationships for SSX2 gene (see all 11)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    sarcoma synovial 95.8 40 10398111 (2), 7951320 (2), 8840996 (2), 15147271 (2) (see all 35)
    testicular cancer 76.8 12 10749136 (2), 14611804 (2), 16224274 (1), 11823502 (1) (see all 9)
    sarcoma 63.9 4 10398111 (1), 12601173 (1), 9788446 (1), 12469233 (1)
    melanoma 48.2 13 10749136 (4), 9378559 (2), 9639388 (2), 12007189 (1) (see all 5)
    tumors 47.1 27 9639388 (3), 18295890 (2), 14611804 (2), 11668506 (1) (see all 18)
    seminoma 43.6 3 11454979 (1), 9639388 (1)
    metastatic melanoma 25.3 1 10749136 (1)
    cancer 24.8 11 9378559 (3), 15603546 (3), 17186289 (1), 15596411 (1) (see all 6)
    metastasis 17.1 1 15781633 (1)
    ovarian cancer 12.9 2 9639388 (1)


    Export disorders for SSX2 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 SSX2 gene, integrated from 9 sources (see all 89):
    (articles sorted by number of sources associating them with SSX2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Molecular diagnosis of synovial sarcoma and characterization of a variant SYT-SSX2 fusion transcript. (PubMed id 7495284)1, 2, 9 Fligman I....Ladanyi M. (1995)
    2. 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, 9 de Bruijn D.R.H....van Kessel A.G. (2002)
    3. 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, 9 Crew A.J.... Cooper C.S. (1995)
    4. 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, 9 Clark J.... Cooper C.S. (1994)
    5. The SSX-2 gene, which is involved in the t(X;18) translocation of synovial sarcomas, codes for the human tumor antigen HOM-MEL-40. (PubMed id 8840996)1, 3, 9 Tureci O....Pfreundschuh M. (1996)
    6. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)
    7. 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)
    8. 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. (1995)
    9. Heterogeneous expression of the SSX cancer/testis antigens in human melanoma lesions and cell lines. (PubMed id 10749136)1, 9 dos Santos N.R.... Geurts van Kessel A. (2000)
    10. The SSX gene family: characterization of 9 complete genes. (PubMed id 12216073)1, 9 Gure A.O.... Chen Y.-T. (2002)

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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: 6757 HGNC: 11336 AceView: SSX2 Ensembl:ENSG00000241476 euGenes: HUgn6757
    ECgene: SSX2 H-InvDB: SSX2

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for SSX2 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for SSX2 Genetics and Cytogenetics in Oncology and Haematology

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