The Genomic Atlas of Breast Cancer — the non-coding theme

Update News

  • GABC update 2020.06.15
  • GABC update 2019.03.20
  • GABC online 2018.08.09
  • Data collection 2018.04.09

About Us

  • Steven Xi Chen:
    steven.chen@miami.edu
  • Yunpeng Zhang:
    YXZ1418@med.miami.edu
  • Peng Wang:
    wpgqy@163.com
  • Shangwei Ning:
    ningsw@ems.hrbmu.edu.cn
  • Xia Li:
    lixia@hrbmu.edu.cn

Breast cancer associated SNPs

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Chr Position SNPID Disease/Trait name pvalue PMID
15 95425209 rs1002515 Gene expression of KRT82 (probeID ILMN_1676086) in breast tumors 8.28E-06 22522925
15 35299625 rs1037754 Gene expression of HES3 (probeID ILMN_1696055) in breast tumors 4.41E-04 22522925
15 52601189 rs1045700 Breast cancer risk (in BRCA1 mutation carriers) 7.75E-05 20852631
15 40700022 rs10518693 Gene expression of IVD (probeID ILMN_1724207) in breast tumors 1.21E-07 22522925
15 40884719 rs11070283 Gene expression of MRPL42P5 (probeID ILMN_2042343) in breast tumors 3.51E-08 22522925
15 67560701 rs11071945 Gene expression of UMPS (probeID ILMN_1757437) in breast tumors 9.53E-04 22522925
15 79232319 rs11072815 Gene expression of CTSH (probeID ILMN_2390853) in breast tumors 4.79E-04 22522925
15 88361491 rs11073746 Breast cancer 2.40E-04 21908515
15 48734008 rs113577372 Breast cancer (Estrogen receptor positive breast cancer) 2.70E-06 23555315
15 92301298 rs11631761 Breast cancer 7.00E-04 23555315
15 79277486 rs116883402 Breast cancer (Estrogen receptor positive breast cancer) 5.60E-05 23555315
15 102203878 rs11854173 Gene expression of TARSL2 (probeID ILMN_1720267) in breast tumors 1.84E-10 22522925
15 91489685 rs11854429 Gene expression of UNC45A (probeID ILMN_2395932) in breast tumors 5.38E-65 22522925
15 90788884 rs11855930 Gene expression of C15ORF58 (probeID ILMN_1810855) in breast tumors 6.49E-04 22522925
15 54527011 rs11856476 Breast cancer 4.10E-04 21908515
15 45636667 rs12439274 Gene expression of SPATA5L1 (probeID ILMN_1729179) in breast tumors 6.58E-10 22522925
15 51045564 rs12440570 Gene expression of SPPL2A (probeID ILMN_1734229) in breast tumors 3.57E-04 22522925
15 89304189 rs12591707 Breast cancer (hormonal receptor positive breast cancer) 1.49E-05 22951594
15 76964152 rs12904417 Gene expression of SCAPER (probeID ILMN_1811178) in breast tumors 1.87E-15 22522925
15 33310874 rs12904866 Breast size (bra cup size in women) 3.74E-05 22747683
15 78269472 rs12906542 Breast cancer (familial breast cancer) 2.20E-07 23354978
15 78269472 rs12906542 Breast cancer 7.00E-07 23354978
15 54550478 rs12908083 Breast cancer 7.50E-05 21908515
15 33358384 rs12917561 Breast size (bra cup size in women) 7.06E-05 22747683
15 46798142 rs1367814 Breast cancer 2.20E-05 21908515
15 65812104 rs1369157 Gene expression of C15ORF44 (probeID ILMN_2268026) in breast tumors 7.35E-07 22522925
15 54305612 rs137929834 Breast cancer (Estrogen receptor negative breast cancer) 6.20E-05 23555315
15 23889873 rs138628273 Breast cancer 2.90E-05 23555315
15 45401034 rs139786814 Breast cancer (Estrogen receptor positive breast cancer) 2.00E-04 23555315
15 51763587 rs140921435 Breast cancer (Estrogen receptor positive breast cancer) 1.20E-04 23555315
15 50593003 rs141883945 Breast cancer (Estrogen receptor negative breast cancer) 5.90E-06 23555315
15 91525048 rs142416384 Breast cancer 2.10E-05 23555315
15 59009800 rs144893047 Breast cancer (Estrogen receptor negative breast cancer) 1.30E-09 23555315
15 89169738 rs147477549 Breast cancer 2.10E-04 23555315
15 50904954 rs150072757 Breast cancer 5.10E-05 23555315
15 50904954 rs150072757 Breast cancer (Estrogen receptor positive breast cancer) 7.80E-05 23555315
15 45434309 rs150683309 Breast cancer 1.10E-04 23555315
15 57753867 rs1511951 Gene expression of CGNL1 (probeID ILMN_1730229) in breast tumors 7.48E-06 22522925
15 64792042 rs151216141 Breast cancer 4.60E-05 23555315
15 43708737 rs16957715 Gene expression of ZSCAN29 (probeID ILMN_1691772) in breast tumors 5.98E-05 22522925
15 49148356 rs16961733 Gene expression of EID1 (probeID ILMN_1775269) in breast tumors 2.66E-04 22522925
15 96582997 rs16976004 Breast cancer early age of onset 1.51E-04 18463975
15 60751687 rs17191414 Gene expression of NARG2 (probeID ILMN_2346460) in breast tumors 5.36E-29 22522925
15 84704349 rs17299684 Breast cancer survival 3.25E-05 20332263
15 43662362 rs17780920 Gene expression of ZSCAN29 (probeID ILMN_1691772) in breast tumors 2.60E-46 22522925
15 56032665 rs185716584 Breast cancer (Estrogen receptor positive breast cancer) 1.50E-04 23555315
15 48900586 rs1876206 Breast cancer 6.00E-06 17903305
15 49059638 rs199690309 Breast cancer (Estrogen receptor negative breast cancer) 8.90E-05 23555315
15 39881431 rs201454661 Breast cancer (Estrogen receptor positive breast cancer) 3.90E-05 23555315
15 39881431 rs201454661 Breast cancer 6.20E-05 23555315
15 63636878 rs2046484 Breast cancer 6.95E-05 20872241
15 101108287 rs2131659 Gene expression of LINS1 (probeID ILMN_2338197) in breast tumors 9.38E-27 22522925
15 91326099 rs2227935 Breast cancer 5.40E-05 23555315
15 61987998 rs2243431 Breast cancer 1.20E-04 23555315
15 51569410 rs2305707 Breast cancer 8.10E-04 23555315
15 40839315 rs2412531 Gene expression of C15ORF57 (probeID ILMN_2413318) in breast tumors 5.41E-32 22522925
15 40839315 rs2412531 Gene expression of CCDC32 (probeID ILMN_1811264) in breast tumors 9.84E-19 22522925
15 39844315 rs2618157 Breast cancer 6.70E-05 23555315
15 91428327 rs28510611 Breast cancer (Estrogen receptor negative breast cancer) 9.40E-05 23555315
15 25917966 rs2930629 Breast cancer 5.39E-05 pha002853
15 33339826 rs343908 Breast cancer 4.26E-08 20852631
15 65777205 rs352457 Breast cancer survival 1.82E-05 20332263
15 50773787 rs3743044 Breast cancer 7.90E-04 23555315
15 91497515 rs3743452 Gene expression of UNC45A (probeID ILMN_2395932) in breast tumors 4.80E-13 22522925
15 40662748 rs3803359 Gene expression of DISP2 (probeID ILMN_1813517) in breast tumors 9.38E-32 22522925
15 43939642 rs386615008 Breast cancer (Estrogen receptor positive breast cancer) 2.40E-04 23555315
15 61702779 rs3884558 Breast cancer early age of onset (diagnosed before age 40) 3.90E-06 23319801
15 61702779 rs3884558 Breast cancer (prognosis) 4.00E-06 23319801
15 86175224 rs414374 Gene expression of AKAP13 (probeID ILMN_1752247) in breast tumors 1.60E-10 22522925
15 100767001 rs4246309 Musculoskeletal adverse events (MS-AEs) in women receiving AI adjuvant therapy for early breast cancer 5.07E-05 20876420
15 86462852 rs4262906 Adverse response to chemotherapy in breast cancer (alopecia) (docetaxel) 7.00E-07 24025145
15 86462852 rs4262906 Adverse response to chemotherapy in breast cancer (alopecia) (anti-microtubule) 3.00E-06 24025145
15 33667669 rs4304993 Breast size (bra cup size in women) 1.49E-05 22747683
15 90647856 rs4561444 Gene expression of IDH2 (probeID ILMN_1751753) in breast tumors 5.73E-04 22522925
15 61466998 rs4774388 Gene expression of RORA (probeID ILMN_1805614) in breast tumors 2.36E-13 22522925
15 55193334 rs4774725 Breast cancer early age of onset 2.12E-04 18463975
15 93742047 rs4777792 Breast cancer 3.30E-04 19330027
15 81591639 rs4778636 Gene expression of IL16 (probeID ILMN_2290628) in breast tumors 3.42E-09 22522925
15 64783725 rs477966 Gene expression of TRIP4 (probeID ILMN_1661173) in breast tumors 1.50E-05 22522925
15 31060003 rs56551961 Gene expression of VPS39 (probeID ILMN_1770388) in breast tumors 9.71E-04 22522925
15 89803950 rs62020347 Breast cancer 1.80E-07 23555315
15 43318140 rs6493076 Breast cancer 6.47E-04 21424380
15 80136129 rs685487 Gene expression of MTHFS (probeID ILMN_1772302) in breast tumors 4.69E-09 22522925
15 75928192 rs7166281 Gene expression of MAN2C1 (probeID ILMN_2111739) in breast tumors 7.50E-04 22522925
15 91354521 rs7167216 Breast cancer 5.10E-05 23555315
15 75315328 rs7173218 Gene expression of SCAMP5 (probeID ILMN_1753345) in breast tumors 2.15E-05 22522925
15 90371548 rs7173483 Gene expression of AP3S2 (probeID ILMN_1731596) in breast tumors 2.56E-19 22522925
15 71786905 rs7181587 Breast cancer 1.25E-04 pha002853
15 96781894 rs7183440 Gene expression of MTERFD1 (probeID ILMN_1782504) in breast tumors 7.89E-11 22522925
15 96781894 rs7183440 Gene expression of AZIN1 (probeID ILMN_1656682) in breast tumors 2.52E-10 22522925
15 96781894 rs7183440 Gene expression of EFR3A (probeID ILMN_1664776) in breast tumors 6.75E-08 22522925
15 96781894 rs7183440 Gene expression of STK3 (probeID ILMN_1666453) in breast tumors 9.14E-08 22522925
15 96781894 rs7183440 Gene expression of EBAG9 (probeID ILMN_1791896) in breast tumors 1.61E-07 22522925
15 96781894 rs7183440 Gene expression of CPNE3 (probeID ILMN_1773576) in breast tumors 3.10E-07 22522925
15 96781894 rs7183440 Gene expression of OTUD6B (probeID ILMN_1772703) in breast tumors 4.31E-07 22522925
15 96781894 rs7183440 Gene expression of MAL2 (probeID ILMN_1770653) in breast tumors 2.24E-06 22522925
15 96781894 rs7183440 Gene expression of PHF20L1 (probeID ILMN_1732985) in breast tumors 5.51E-06 22522925
15 96781894 rs7183440 Gene expression of TAF2 (probeID ILMN_1694888) in breast tumors 1.53E-05 22522925
15 96781894 rs7183440 Gene expression of HRSP12 (probeID ILMN_1807633) in breast tumors 3.72E-05 22522925
15 96781894 rs7183440 Gene expression of NBN (probeID ILMN_1734833) in breast tumors 5.69E-05 22522925
15 96781894 rs7183440 Gene expression of KIAA1429 (probeID ILMN_1813635) in breast tumors 6.58E-05 22522925
15 96781894 rs7183440 Gene expression of WDR67 (probeID ILMN_1744240) in breast tumors 7.87E-05 22522925
15 96781894 rs7183440 Gene expression of SCRIB (probeID ILMN_2324029) in breast tumors 8.09E-05 22522925
15 96781894 rs7183440 Gene expression of OXR1 (probeID ILMN_1737462) in breast tumors 1.24E-04 22522925
15 96781894 rs7183440 Gene expression of NUDCD1 (probeID ILMN_1678745) in breast tumors 1.92E-04 22522925
15 96781894 rs7183440 Gene expression of ZNF707 (probeID ILMN_1782021) in breast tumors 3.21E-04 22522925
15 96781894 rs7183440 Gene expression of PHF20L1 (probeID ILMN_2361185) in breast tumors 5.00E-04 22522925
15 101111932 rs8024825 Gene expression of LINS1 (probeID ILMN_2338197) in breast tumors 4.52E-07 22522925
15 67608155 rs8026506 Breast cancer 4.00E-05 22923054
15 49167905 rs8031335 Gene expression of EID1 (probeID ILMN_1775269) in breast tumors 2.96E-26 22522925
15 66646091 rs8031897 Gene expression of DIS3L (probeID ILMN_1795822) in breast tumors 4.94E-14 22522925
15 89070045 rs8034393 Gene expression of ADAM9 (probeID ILMN_1727524) in breast tumors 4.66E-06 22522925
15 94832144 rs8035826 Breast cancer 5.13E-05 20872241
15 78419476 rs8036417 Gene expression of CIB2 (probeID ILMN_1714489) in breast tumors 2.96E-04 22522925
15 33342755 rs8039567 Breast size (bra cup size in women) 9.48E-05 22747683
15 83356259 rs8043401 Gene expression of LOC402057 (probeID ILMN_2407235) in breast tumors 1.17E-08 22522925
15 92702020 rs873122 Gene expression of SLCO3A1 (probeID ILMN_1706261) in breast tumors 6.07E-08 22522925
15 68786285 rs920921 Gene expression of ITGA11 (probeID ILMN_2406084) in breast tumors 6.11E-04 22522925
15 75145098 rs936230 Gene expression of ULK3 (probeID ILMN_1679495) in breast tumors 1.94E-08 22522925
15 78819153 rs952215 Gene expression of CHRNA5 (probeID ILMN_1770044) in breast tumors 4.58E-07 22522925
15 98700918 rs977835 Breast cancer 1.70E-05 22923054
15 57800399 rs9806675 Breast size (bra cup size in women) 6.10E-05 22747683
15 82454283 rs9972386 Gene expression of FAM154B (probeID ILMN_2184884) in breast tumors 4.85E-06 22522925
Chr Position SNPID Disease/Trait name pvalue PMID

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