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
9 97355268 rs10114605 Breast size (bra cup size in women) 5.61E-05 22747683
9 22062134 rs1011970 Breast cancer 2.50E-08 20453838
9 22062134 rs1011970 Breast cancer 3.00E-08 20453838
9 22062134 rs1011970 Breast cancer 5.50E-08 23535729
9 22062134 rs1011970 Breast cancer 6.00E-08 23535729
9 22062134 rs1011970 Breast cancer (Estrogen receptor negative breast cancer) 3.90E-05 23535733
9 97381923 rs10123016 Breast size (bra cup size in women) 4.60E-05 22747683
9 97382120 rs10123666 Breast size (bra cup size in women) 6.25E-05 22747683
9 82465583 rs10512094 Breast cancer 7.42E-05 20872241
9 104458968 rs10512287 Breast cancer 2.30E-04 17903305
9 108481495 rs10512339 Gene expression of TMEM38B (probeID ILMN_1669940) in breast tumors 9.27E-05 22522925
9 85596321 rs10735559 Gene expression of RASEF (probeID ILMN_1779517) in breast tumors 2.26E-27 22522925
9 25679024 rs10738727 Gene expression of TUSC1 (probeID ILMN_1707350) in breast tumors 1.64E-05 22522925
9 33101838 rs10758186 Gene expression of SMU1 (probeID ILMN_1764803) in breast tumors 8.95E-04 22522925
9 36869256 rs10758409 Breast cancer early age of onset 2.44E-04 18463975
9 110306115 rs10759243 Breast cancer (Estrogen receptor positive breast cancer) 6.00E-10 23535729
9 110306115 rs10759243 Breast cancer 1.00E-08 23535729
9 110306115 rs10759243 Breast cancer 1.20E-08 23535729
9 110306115 rs10759243 Breast cancer (invasive breast cancer) 3.30E-07 23535729
9 97362296 rs10761345 Breast size (bra cup size in women) 4.71E-05 22747683
9 97393023 rs10761347 Breast size (bra cup size in women) 1.11E-05 22747683
9 74839689 rs10781090 Breast cancer 3.40E-04 19219042
9 139320929 rs10781538 Gene expression of INPP5E (probeID ILMN_1811301) in breast tumors 4.20E-131 22522925
9 16336250 rs10810557 Breast cancer 1.00E-04 19219042
9 34146645 rs10814071 Breast cancer 2.30E-05 22452962
9 110100745 rs10816493 Gene expression of RAD23B (probeID ILMN_1722662) in breast tumors 7.71E-04 22522925
9 113116973 rs10816985 Breast cancer early age of onset 2.43E-04 18463975
9 113259152 rs10817033 Breast cancer 4.10E-04 23555315
9 124414905 rs10818579 Gene expression of MAN2B1 (probeID ILMN_1759341) in breast tumors 5.82E-04 22522925
9 125017942 rs10818665 Gene expression of RBM18 (probeID ILMN_2222872) in breast tumors 1.92E-09 22522925
9 126695770 rs10818894 Adverse response to chemotherapy in breast cancer (alopecia) (cyclophosphamide+doxorubicin+/-5FU) 2.00E-06 24025145
9 130186700 rs10819291 Breast cancer 3.40E-06 23555315
9 97363859 rs10821375 Breast size (bra cup size in women) 5.81E-05 22747683
9 13926247 rs10961303 Breast cancer 3.86E-05 20872241
9 34151463 rs10971957 Gene expression of NUDT2 (probeID ILMN_2349444) in breast tumors 6.82E-06 22522925
9 34151463 rs10971957 Gene expression of NUDT2 (probeID ILMN_1778347) in breast tumors 3.60E-04 22522925
9 116853660 rs10982063 Breast size (bra cup size in women) 7.74E-05 22747683
9 118919075 rs10983070 Breast cancer 1.00E-04 19219042
9 108094256 rs10991629 Gene expression of HS.572752 (probeID ILMN_1852224) in breast tumors 2.50E-30 22522925
9 97385948 rs10993267 Breast size (bra cup size in women) 6.49E-05 22747683
9 97407189 rs10993276 Breast size (bra cup size in women) 2.07E-05 22747683
9 93557698 rs10993693 Breast cancer (BRCA2-positive) 2.06E-04 21060860
9 82713431 rs11138489 Breast cancer 6.20E-05 21424380
9 80143110 rs11145462 Musculoskeletal adverse events (MS-AEs) in women receiving AI adjuvant therapy for early breast cancer 8.19E-05 20876420
9 139427066 rs11145770 Gene expression of HS.170035 (probeID ILMN_1857335) in breast tumors 5.00E-09 22522925
9 35740902 rs113785628 Breast cancer (Estrogen receptor negative breast cancer) 6.60E-05 23555315
9 136238509 rs1179037 Gene expression of SURF6 (probeID ILMN_1778032) in breast tumors 1.19E-08 22522925
9 130475480 rs118012211 Breast cancer 6.00E-04 23555315
9 103157515 rs12000794 Breast cancer (Estrogen receptor negative breast cancer) 5.40E-06 21062454
9 27292474 rs12337286 Breast cancer 2.60E-04 23555315
9 93569646 rs12553524 Breast cancer (BRCA2-positive) 1.91E-04 21060860
9 93565999 rs1319677 Breast cancer (BRCA2-positive) 6.85E-05 21060860
9 95880252 rs13284731 Gene expression of NINJ1 (probeID ILMN_1815086) in breast tumors 2.86E-06 22522925
9 103691860 rs13285273 Breast cancer 5.75E-05 pha002853
9 82690543 rs13299280 Breast cancer 6.39E-04 21424380
9 115011317 rs1359878 Alanine aminotransferase (ALT) elevation due to Lapatinib treatment of metastatic breast cancer 1.00E-04 21245432
9 119976883 rs139148246 Breast cancer 9.60E-04 23555315
9 97398357 rs1410972 Breast size (bra cup size in women) 9.06E-05 22747683
9 139925490 rs141846761 Breast cancer 2.40E-04 23555315
9 27009095 rs144847384 Breast cancer (Estrogen receptor negative breast cancer) 6.40E-05 23555315
9 130286044 rs147101023 Breast cancer 1.00E-03 23555315
9 32542016 rs149817592 Breast cancer (Estrogen receptor positive breast cancer) 2.10E-04 23555315
9 85601000 rs1502684 Gene expression of RASEF (probeID ILMN_1779517) in breast tumors 8.63E-147 22522925
9 18928963 rs150639454 Breast cancer (Estrogen receptor negative breast cancer) 2.70E-07 23555315
9 123950987 rs1535656 Gene expression of RAB14 (probeID ILMN_1735765) in breast tumors 3.47E-17 22522925
9 114122763 rs16915992 Gene expression of KIAA0368 (probeID ILMN_2261882) in breast tumors 1.32E-15 22522925
9 23342211 rs17780168 Breast size (bra cup size in women) 7.65E-05 22747683
9 109152503 rs1825421 Breast cancer (Estrogen receptor negative breast cancer) 4.98E-06 22976474
9 109676893 rs1858231 Adverse response to chemotherapy in breast cancer (alopecia) (anti-microtubule) 2.00E-06 24025145
9 106772759 rs1867347 Breast cancer 2.08E-04 pha002853
9 79222584 rs1952461 Breast cancer 3.50E-06 20453838
9 103603365 rs1953805 Breast cancer 3.76E-05 20872241
9 115000234 rs2027384 Alanine aminotransferase (ALT) elevation due to Lapatinib treatment of metastatic breast cancer 1.00E-04 21245432
9 35832988 rs2065039 Gene expression of C9ORF128 (probeID ILMN_1683232) in breast tumors 4.40E-19 22522925
9 12194411 rs2066095 Breast cancer (Estrogen receptor negative breast cancer) 3.96E-05 22976474
9 7385490 rs2148360 Breast cancer (Estrogen receptor negative breast cancer) 8.10E-07 23555315
9 19728716 rs2208549 Breast cancer recurrence 4.10E-04 22232737
9 93080194 rs2246522 Breast cancer 1.00E-03 23555315
9 37036247 rs2282079 Breast cancer survival 2.76E-05 20332263
9 134385436 rs2296949 Breast cancer 1.00E-03 23555315
9 103766537 rs2417226 Breast cancer 8.20E-05 pha002853
9 136586954 rs2502757 Gene expression of SARDH (probeID ILMN_1704973) in breast tumors 4.61E-10 22522925
9 136235100 rs28374096 Gene expression of SURF1 (probeID ILMN_1663407) in breast tumors 1.95E-17 22522925
9 97399708 rs28402381 Breast size (bra cup size in women) 1.15E-05 22747683
9 93546913 rs290274 Breast cancer (BRCA2-positive) 9.69E-05 21060860
9 131589033 rs2997913 Gene expression of ENDOG (probeID ILMN_1722309) in breast tumors 2.22E-06 22522925
9 116132334 rs3088235 Breast cancer 6.50E-04 23555315
9 131905854 rs3118634 Gene expression of HS.148844 (probeID ILMN_1854132) in breast tumors 1.70E-29 22522925
9 23364076 rs35383407 Breast size (bra cup size in women) 8.64E-05 22747683
9 92976389 rs35585204 Breast size (bra cup size in women) 2.50E-05 22747683
9 97372172 rs3739747 Breast size (bra cup size in women) 4.12E-05 22747683
9 97365985 rs3780554 Breast size (bra cup size in women) 4.83E-05 22747683
9 97366093 rs3780555 Breast size (bra cup size in women) 4.83E-05 22747683
9 133712801 rs3808821 Breast cancer 1.00E-04 22923054
9 139270876 rs3812561 Gene expression of DNLZ (probeID ILMN_2112049) in breast tumors 1.56E-22 22522925
9 139312719 rs3812584 Gene expression of INPP5E (probeID ILMN_1811301) in breast tumors 1.87E-27 22522925
9 129390800 rs3829849 Breast cancer 4.40E-05 20585626
9 97390098 rs4129220 Breast size (bra cup size in women) 1.11E-05 22747683
9 114508557 rs41306457 Breast cancer (Estrogen receptor negative breast cancer) 7.70E-05 23555315
9 139376426 rs4379550 Gene expression of INPP5E (probeID ILMN_1811301) in breast tumors 5.40E-15 22522925
9 134386781 rs4740164 Breast cancer 1.00E-03 23555315
9 217597 rs4741635 Breast cancer (hormonal receptor positive breast cancer) 5.84E-05 22951594
9 8371609 rs4742490 Musculoskeletal adverse events (MS-AEs) in women receiving AI adjuvant therapy for early breast cancer 2.04E-05 20876420
9 97395119 rs4744360 Breast size (bra cup size in women) 8.99E-05 22747683
9 97409190 rs4744363 Breast size (bra cup size in women) 5.82E-05 22747683
9 132387665 rs4837393 Gene expression of ASB6 (probeID ILMN_1806705) in breast tumors 2.87E-04 22522925
9 123207702 rs4837771 Gene expression of HS.122812 (probeID ILMN_1817200) in breast tumors 2.89E-04 22522925
9 83001846 rs4877564 Breast cancer risk (in BRCA1 mutation carriers) 8.89E-06 20852631
9 83015449 rs4877566 Breast cancer risk (in BRCA1 mutation carriers) 5.58E-06 20852631
9 34282388 rs4878560 Gene expression of NUDT2 (probeID ILMN_1778347) in breast tumors 8.97E-06 22522925
9 34375450 rs4878564 Gene expression of NUDT2 (probeID ILMN_1778347) in breast tumors 8.77E-29 22522925
9 98638306 rs56108623 Breast cancer 1.70E-04 23555315
9 18125966 rs579392 Breast cancer 6.50E-04 23555315
9 2203938 rs6475600 Adverse response to chemotherapy in breast cancer (alopecia) (cyclophosphamide+doxorubicin+/-5FU) 2.00E-06 24025145
9 115023661 rs6477905 Alanine aminotransferase (ALT) elevation due to Lapatinib treatment of metastatic breast cancer 1.00E-04 21245432
9 116857234 rs6478061 Breast size (bra cup size in women) 5.74E-05 22747683
9 119992267 rs6478296 Breast cancer 6.68E-05 21424380
9 94268566 rs6479347 Breast cancer 4.50E-04 17903305
9 97406328 rs6479561 Breast size (bra cup size in women) 1.86E-05 22747683
9 139830940 rs6560652 Gene expression of TRAF2 (probeID ILMN_1691487) in breast tumors 2.16E-04 22522925
9 100666931 rs6586 Gene expression of HS.551137 (probeID ILMN_1853631) in breast tumors 4.75E-36 22522925
9 100666931 rs6586 Gene expression of C9ORF156 (probeID ILMN_1700028) in breast tumors 3.65E-11 22522925
9 130169874 rs6635 Gene expression of SLC2A8 (probeID ILMN_1724609) in breast tumors 1.24E-20 22522925
9 110882390 rs667052 Breast cancer 5.37E-05 21263130
9 1715820 rs7020507 "Breast cancer (estrogen-receptor negative, progesterone-receptor negative, and human epidermal growth factor-receptor negative)" 6.90E-05 24325915
9 97388838 rs7025121 Breast size (bra cup size in women) 1.12E-05 22747683
9 114990872 rs7026917 Alanine aminotransferase (ALT) elevation due to Lapatinib treatment of metastatic breast cancer 1.00E-04 21245432
9 99093719 rs7028361 Gene expression of HABP4 (probeID ILMN_2107991) in breast tumors 1.47E-05 22522925
9 111022525 rs7030526 Breast cancer 1.03E-05 21263130
9 27926593 rs7030798 Breast cancer 7.64E-15 20872241
9 93570505 rs7036417 Breast cancer (BRCA2-positive) 6.67E-05 21060860
9 116081449 rs7038589 Gene expression of WDR31 (probeID ILMN_2387175) in breast tumors 2.41E-13 22522925
9 103051205 rs7039994 Breast cancer (Estrogen receptor negative breast cancer) 3.95E-06 21062454
9 97389071 rs7041301 Breast size (bra cup size in women) 1.16E-05 22747683
9 97389287 rs7041595 Breast size (bra cup size in women) 1.03E-05 22747683
9 83027012 rs7047256 Breast cancer risk (in BRCA1 mutation carriers) 8.22E-05 20852631
9 83027012 rs7047256 Breast cancer 7.42E-04 20852631
9 101857 rs72543800 Gene expression of FOXD4 (probeID ILMN_2173524) in breast tumors 1.00E-04 22522925
9 131762080 rs73624835 Breast cancer (Estrogen receptor negative breast cancer) 5.20E-05 23555315
9 121905152 rs7468009 Alanine aminotransferase (ALT) elevation due to Lapatinib treatment of metastatic breast cancer 3.00E-05 21245432
9 23354318 rs7469918 Breast size (bra cup size in women) 4.85E-05 22747683
9 34371788 rs7852399 Gene expression of NUDT2 (probeID ILMN_2349444) in breast tumors 3.16E-04 22522925
9 130198100 rs7853047 Gene expression of ZNF79 (probeID ILMN_1794122) in breast tumors 2.64E-07 22522925
9 37421065 rs7856656 Gene expression of GRHPR (probeID ILMN_1664798) in breast tumors 3.74E-04 22522925
9 133862285 rs7862053 Gene expression of HS.559008 (probeID ILMN_1911927) in breast tumors 9.46E-04 22522925
9 34303922 rs7862080 Gene expression of NUDT2 (probeID ILMN_2349444) in breast tumors 2.43E-27 22522925
9 94763136 rs7867394 Gene expression of SPTLC1 (probeID ILMN_1665094) in breast tumors 3.04E-06 22522925
9 37612036 rs7867861 Gene expression of TOMM5 (probeID ILMN_1808661) in breast tumors 1.16E-55 22522925
9 115416257 rs786990 Breast cancer (BRCA2-positive) 8.12E-05 21060860
9 12886259 rs78703297 Breast size (bra cup size in women) 8.64E-05 22747683
9 115030570 rs7870866 Alanine aminotransferase (ALT) elevation due to Lapatinib treatment of metastatic breast cancer 1.00E-04 21245432
9 138901990 rs79653069 Breast size (bra cup size in women) 3.87E-05 22747683
9 140277794 rs80074261 Breast cancer 9.30E-04 23555315
9 110888478 rs865686 Breast cancer 9.50E-35 23535729
9 110888478 rs865686 Breast cancer 1.00E-34 23535729
9 110888478 rs865686 Breast cancer 1.75E-10 21263130
9 110888478 rs865686 Breast cancer 2.00E-10 21263130
9 123149491 rs872423 Gene expression of CDK5RAP2 (probeID ILMN_1655990) in breast tumors 3.92E-37 22522925
9 7770233 rs9407382 Gene expression of HS.232517 (probeID ILMN_1888252) in breast tumors 1.02E-04 22522925
9 113112572 rs963143 Breast cancer early age of onset 1.85E-04 18463975
Chr Position SNPID Disease/Trait name pvalue PMID

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