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  Chromosome X

Genes Linked with Cancer

How to use this data table Click on the gene name for detailed information. Type in the Search box e.g. 'germline' or 'Breast Cancer' to search within Chromosome X; or Sort by clicking on a column heading e.g. 'Gene'.

Gene Location Aliases Abnormalities Implicated in
TGCT1 None
ELK1 Xp11.2
KDM6A Xp11.2 UTX, KABUK2, bA386N14.2Somatic
SSX2 Xp11.22 SSX, HD21, CT5.2, CT5.2A, HOM-MEL-40Somatic
TFE3 Xp11.22 TFEA, RCCP2, RCCX1, bHLHe33Somatic
Translocation
-Kidney Cancer
-Soft Tissue Sarcoma
KDM5C Xp11.22-p11.21 MRXJ, SMCX, MRXSJ, XE169, MRXSCJ, JARID1C, DXS1272ESomatic
GATA1 Xp11.23 GF1, GF-1, NFE1, XLTT, ERYF1, NF-E1, XLANP, XLTDA, GATA-1Somatic
SSX4 Xp11.23 CT5.4Somatic
SSX1 Xp11.23 SSRC, CT5.1Somatic
Translocation
-Soft Tissue Sarcoma
TIMP1 Xp11.3-p11.23 EPA, EPO, HCI, CLGI, TIMP
BCOR Xp11.4 MAA2, ANOP2, MCOPS2Somatic
ARAF Xp11.4-p11.2 PKS2, A-RAF, ARAF1, RAFA1
WAS Xp11.4-p11.21 THC, IMD2, SCNX, THC1, WASP
ZRSR2 Xp22.1 URP, U2AF1L2, U2AF1RS2, U2AF1-RS2Somatic
FANCB Xp22.2 FA2, FAB, FACB, FAAP90, FAAP95Germline-Fanconi Anaemia
CD99 Xp22.32 and Yp11.3 MIC2, HBA71, MIC2X, MIC2Y, MSK5XOverexpression-Ewing's Sarcoma
MSN Xq11.1 HEL70Somatic
AMER1 Xq11.2 WTX, OSCS, FAM123B, RP11-403E24.2Somatic
AR Xq12 KD, AIS, TFM, DHTR, SBMA, HYSP1, NR3C4, SMAX1, HUMARA
MED12 Xq13 OKS, FGS1, HOPA, OPA1, OHDOX, ARC240, CAGH45, MED12S, TNRC11, TRAP230Somatic
FOXO4 Xq13.1 AFX, AFX1, MLLT7Somatic
NONO Xq13.1 P54, NMT55, NRB54, P54NRBSomatic
ATRX Xq21.1 JMS, SHS, XH2, XNP, ATR2, SFM1, RAD54, MRXHF1, RAD54L, ZNF-HXSomatic
SEPT6 Xq24 SEP2, SEPT2, RP5-876A24.2Somatic
ELF4 Xq26 MEF, ELFRSomatic
GPC3 Xq26.1 SGB, DGSX, MXR7, SDYS, SGBS, OCI-5, SGBS1, GTR2-2Germline
PHF6 Xq26.3 BFLS, BORJ, CENP-31Somatic
MCF2 Xq27 DBL, ARHGEF21
HPCX Xq27-q28
MTCP1 Xq28 p8MTCP1, P13MTCP1Somatic
CTAG1B Xq28 CTAG, ESO1, CT6.1, CTAG1, LAGE-2, LAGE2B, NY-ESO-1
MAGEA1 Xq28 CT1.1, MAGE1
MAGEA2 Xq28 CT1.2, MAGE2, MAGEA2A
MAGEA3 Xq28 HIP8, HYPD, CT1.3, MAGE3, MAGEA6

Structural Abnormalities

Selected list of common recurrent structural abnormalities - Chromosome X:

Abnormality Type Gene(s)
t(X;18)(p11.2;q11.2) in Synovial SarcomaTranslocationSSX1 (Xp11.23)SS18 (18q11.2)
der(17)t(X;17)(p11.2;q25) in Alveolar Soft-Part SarcomaTranslocationTFE3 (Xp11.22)ASPSCR1 (17q25)
t(X;1)(p11;q21) in Papillary Renal Cell CarcinomaTranslocationTFE3 (Xp11.22)PRCC (1q21.1)

This is a highly selective list aiming to capture structural abnormalies which are frequesnt and/or significant in relation to diagnosis, prognosis, and/or characterising specific cancers. For a much more extensive list see the Mitelman Database of Chromosome Aberrations and Gene Fusions in Cancer.


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