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Volumn 33, Issue 2, 2009, Pages 147-154

Novel generating protective single nucleotide polymorphism barcode for breast cancer using particle swarm optimization

Author keywords

Binary particle swarm optimization; Odds ratio; Single nucleotide polymorphism; SNP interactions

Indexed keywords

ARTICLE; BREAST CANCER; CANCER PREVENTION; CANCER RISK; CLINICAL EVALUATION; GENE IDENTIFICATION; GENE INTERACTION; GENETIC ASSOCIATION; GENETIC CODE; GENOTYPE; HUMAN; PARTICLE SWARM OPTIMIZATION; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 68149144254     PISSN: 18777821     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.canep.2009.07.001     Document Type: Article
Times cited : (24)

References (31)
  • 1
    • 0032997217 scopus 로고    scopus 로고
    • The essence of SNPs
    • Brookes A.J. The essence of SNPs. Gene 234 2 (1999) 177-186
    • (1999) Gene , vol.234 , Issue.2 , pp. 177-186
    • Brookes, A.J.1
  • 2
    • 32244440536 scopus 로고    scopus 로고
    • The use of genetic SNPs as new diagnostic markers in preventive medicine
    • Cantor C.R. The use of genetic SNPs as new diagnostic markers in preventive medicine. Ann N Y Acad Sci 1055 (2005) 48-57
    • (2005) Ann N Y Acad Sci , vol.1055 , pp. 48-57
    • Cantor, C.R.1
  • 3
    • 34047183797 scopus 로고    scopus 로고
    • Genome-wide SNP analysis in cancer: leukemia shows the way
    • Wang Y., and Armstrong S.A. Genome-wide SNP analysis in cancer: leukemia shows the way. Cancer Cell 11 4 (2007) 308-309
    • (2007) Cancer Cell , vol.11 , Issue.4 , pp. 308-309
    • Wang, Y.1    Armstrong, S.A.2
  • 4
    • 33847293352 scopus 로고    scopus 로고
    • Complex disease-associated pharmacogenetics: drug efficacy, drug safety, and confirmation of a pathogenetic hypothesis (Alzheimer's disease)
    • Roses A.D., Saunders A.M., Huang Y., Strum J., Weisgraber K.H., and Mahley R.W. Complex disease-associated pharmacogenetics: drug efficacy, drug safety, and confirmation of a pathogenetic hypothesis (Alzheimer's disease). Pharmacogenomics J 7 1 (2007) 10-28
    • (2007) Pharmacogenomics J , vol.7 , Issue.1 , pp. 10-28
    • Roses, A.D.1    Saunders, A.M.2    Huang, Y.3    Strum, J.4    Weisgraber, K.H.5    Mahley, R.W.6
  • 5
    • 55949136006 scopus 로고    scopus 로고
    • High fidelity of whole-genome amplified DNA on high-density single nucleotide polymorphism arrays
    • Xing J., Watkins W.S., Zhang Y., Witherspoon D.J., and Jorde L.B. High fidelity of whole-genome amplified DNA on high-density single nucleotide polymorphism arrays. Genomics 92 6 (2008) 452-456
    • (2008) Genomics , vol.92 , Issue.6 , pp. 452-456
    • Xing, J.1    Watkins, W.S.2    Zhang, Y.3    Witherspoon, D.J.4    Jorde, L.B.5
  • 6
    • 53749101271 scopus 로고    scopus 로고
    • Evaluating the performance of Affymetrix SNP Array 6.0 platform with 400 Japanese individuals
    • Nishida N., Koike A., Tajima A., Ogasawara Y., Ishibashi Y., Uehara Y., et al. Evaluating the performance of Affymetrix SNP Array 6.0 platform with 400 Japanese individuals. BMC Genomics 9 (2008) 431
    • (2008) BMC Genomics , vol.9 , pp. 431
    • Nishida, N.1    Koike, A.2    Tajima, A.3    Ogasawara, Y.4    Ishibashi, Y.5    Uehara, Y.6
  • 7
    • 46249123470 scopus 로고    scopus 로고
    • Calibrating the performance of SNP arrays for whole-genome association studies
    • Hao K., Schadt E.E., and Storey J.D. Calibrating the performance of SNP arrays for whole-genome association studies. PLoS Genet 4 6 (2008) e1000109
    • (2008) PLoS Genet , vol.4 , Issue.6
    • Hao, K.1    Schadt, E.E.2    Storey, J.D.3
  • 9
    • 48549090164 scopus 로고    scopus 로고
    • Two-stage designs to identify the effects of SNP combinations on complex diseases
    • Kang G., Yue W., Zhang J., Huebner M., Zhang H., Ruan Y., et al. Two-stage designs to identify the effects of SNP combinations on complex diseases. J Hum Genet 53 8 (2008) 739-746
    • (2008) J Hum Genet , vol.53 , Issue.8 , pp. 739-746
    • Kang, G.1    Yue, W.2    Zhang, J.3    Huebner, M.4    Zhang, H.5    Ruan, Y.6
  • 11
    • 50249119020 scopus 로고    scopus 로고
    • Comparison of multivariate adaptive regression splines and logistic regression in detecting SNP-SNP interactions and their application in prostate cancer
    • Lin H.Y., Wang W., Liu Y.H., Soong S.J., York T.P., Myers L., et al. Comparison of multivariate adaptive regression splines and logistic regression in detecting SNP-SNP interactions and their application in prostate cancer. J Hum Genet 53 9 (2008) 802-811
    • (2008) J Hum Genet , vol.53 , Issue.9 , pp. 802-811
    • Lin, H.Y.1    Wang, W.2    Liu, Y.H.3    Soong, S.J.4    York, T.P.5    Myers, L.6
  • 12
    • 40049098166 scopus 로고    scopus 로고
    • Cumulative association of five genetic variants with prostate cancer
    • Zheng S.L., Sun J., Wiklund F., Smith S., Stattin P., Li G., et al. Cumulative association of five genetic variants with prostate cancer. N Engl J Med 358 9 (2008) 910-919
    • (2008) N Engl J Med , vol.358 , Issue.9 , pp. 910-919
    • Zheng, S.L.1    Sun, J.2    Wiklund, F.3    Smith, S.4    Stattin, P.5    Li, G.6
  • 14
    • 33746502729 scopus 로고    scopus 로고
    • Adenosine diphosphate ribosyl transferase and x-ray repair cross-complementing 1 polymorphisms in gastric cardia cancer
    • Miao X., Zhang X., Zhang L., Guo Y., Hao B., Tan W., et al. Adenosine diphosphate ribosyl transferase and x-ray repair cross-complementing 1 polymorphisms in gastric cardia cancer. Gastroenterology 131 2 (2006) 420-427
    • (2006) Gastroenterology , vol.131 , Issue.2 , pp. 420-427
    • Miao, X.1    Zhang, X.2    Zhang, L.3    Guo, Y.4    Hao, B.5    Tan, W.6
  • 15
    • 33645311207 scopus 로고    scopus 로고
    • Joint effects of single nucleotide polymorphisms in P53BP1 and p53 on breast cancer risk in a Chinese population
    • Ma H., Hu Z., Zhai X., Wang S., Wang X., Qin J., et al. Joint effects of single nucleotide polymorphisms in P53BP1 and p53 on breast cancer risk in a Chinese population. Carcinogenesis 27 4 (2006) 766-771
    • (2006) Carcinogenesis , vol.27 , Issue.4 , pp. 766-771
    • Ma, H.1    Hu, Z.2    Zhai, X.3    Wang, S.4    Wang, X.5    Qin, J.6
  • 16
    • 42149086090 scopus 로고    scopus 로고
    • Combinational polymorphisms of four DNA repair genes XRCC1, XRCC2, XRCC3, and XRCC4 and their association with oral cancer in Taiwan
    • Yen C.Y., Liu S.Y., Chen C.H., Tseng H.F., Chuang L.Y., Yang C.H., et al. Combinational polymorphisms of four DNA repair genes XRCC1, XRCC2, XRCC3, and XRCC4 and their association with oral cancer in Taiwan. J Oral Pathol Med 37 5 (2008) 271-277
    • (2008) J Oral Pathol Med , vol.37 , Issue.5 , pp. 271-277
    • Yen, C.Y.1    Liu, S.Y.2    Chen, C.H.3    Tseng, H.F.4    Chuang, L.Y.5    Yang, C.H.6
  • 17
    • 40349090639 scopus 로고    scopus 로고
    • SNP combinations in chromosome-wide genes are associated with bone mineral density in Taiwanese women
    • Lin G.T., Tseng H.F., Chang C.K., Chuang L.Y., Liu C.S., Yang C.H., et al. SNP combinations in chromosome-wide genes are associated with bone mineral density in Taiwanese women. Chin J Physiol 91 1 (2008) 1-10
    • (2008) Chin J Physiol , vol.91 , Issue.1 , pp. 1-10
    • Lin, G.T.1    Tseng, H.F.2    Chang, C.K.3    Chuang, L.Y.4    Liu, C.S.5    Yang, C.H.6
  • 18
    • 68149089150 scopus 로고    scopus 로고
    • Particle swarm optimization. Proceedings IEEE International Conference on Neural Networks, Perth, Australia; 1995.
    • Particle swarm optimization. Proceedings IEEE International Conference on Neural Networks, Perth, Australia; 1995.
  • 19
    • 64549155302 scopus 로고    scopus 로고
    • Combinational polymorphisms of seven CXCL12-related genes are protective against breast cancer in Taiwan
    • Lin G.T., Tseng H.F., Yang C.H., Hou M.F., Chuang L.Y., Tai H.T., et al. Combinational polymorphisms of seven CXCL12-related genes are protective against breast cancer in Taiwan. OMICS 13 2 (2009) 165-172
    • (2009) OMICS , vol.13 , Issue.2 , pp. 165-172
    • Lin, G.T.1    Tseng, H.F.2    Yang, C.H.3    Hou, M.F.4    Chuang, L.Y.5    Tai, H.T.6
  • 20
    • 0031352450 scopus 로고    scopus 로고
    • A discrete binary version of the particle swarm algorithm. Computational Cybernetics and Simulation, Proceedings IEEE Intl. Conf. on Systems, Man, and Cybernetic; 1997.
    • A discrete binary version of the particle swarm algorithm. Computational Cybernetics and Simulation, Proceedings IEEE Intl. Conf. on Systems, Man, and Cybernetic; 1997.
  • 21
    • 34548720461 scopus 로고    scopus 로고
    • Defining a Standard for Particle Swarm Optimization. Proceedings of the 2007 IEEE Swarm Intelligence Symposium (SIS 2007); 2007.
    • Defining a Standard for Particle Swarm Optimization. Proceedings of the 2007 IEEE Swarm Intelligence Symposium (SIS 2007); 2007.
  • 22
    • 34250793265 scopus 로고    scopus 로고
    • Clinical importance and therapeutic implications of the pivotal CXCL12-CXCR4 (chemokine ligand-receptor) interaction in cancer cell migration
    • Arya M., Ahmed H., Silhi N., Williamson M., and Patel H.R. Clinical importance and therapeutic implications of the pivotal CXCL12-CXCR4 (chemokine ligand-receptor) interaction in cancer cell migration. Tumour Biol 28 3 (2007) 123-131
    • (2007) Tumour Biol , vol.28 , Issue.3 , pp. 123-131
    • Arya, M.1    Ahmed, H.2    Silhi, N.3    Williamson, M.4    Patel, H.R.5
  • 23
    • 0034618052 scopus 로고    scopus 로고
    • Signal transduction by CXC chemokine receptor 4. Stromal cell-derived factor 1 stimulates prolonged protein kinase B and extracellular signal-regulated kinase 2 activation in T lymphocytes
    • Tilton B., Ho L., Oberlin E., Loetscher P., Baleux F., Clark-Lewis I., et al. Signal transduction by CXC chemokine receptor 4. Stromal cell-derived factor 1 stimulates prolonged protein kinase B and extracellular signal-regulated kinase 2 activation in T lymphocytes. J Exp Med 192 3 (2000) 313-324
    • (2000) J Exp Med , vol.192 , Issue.3 , pp. 313-324
    • Tilton, B.1    Ho, L.2    Oberlin, E.3    Loetscher, P.4    Baleux, F.5    Clark-Lewis, I.6
  • 24
    • 29344451650 scopus 로고    scopus 로고
    • CXCL12/CXCR4 signaling activates Akt-1 and MMP-9 expression in prostate cancer cells: the role of bone microenvironment-associated CXCL12
    • Chinni S.R., Sivalogan S., Dong Z., Filho J.C., Deng X., Bonfil R.D., et al. CXCL12/CXCR4 signaling activates Akt-1 and MMP-9 expression in prostate cancer cells: the role of bone microenvironment-associated CXCL12. Prostate 66 1 (2006) 32-48
    • (2006) Prostate , vol.66 , Issue.1 , pp. 32-48
    • Chinni, S.R.1    Sivalogan, S.2    Dong, Z.3    Filho, J.C.4    Deng, X.5    Bonfil, R.D.6
  • 25
    • 25844480604 scopus 로고    scopus 로고
    • CXCR4 and CXCL12 are inversely expressed in colorectal cancer cells and modulate cancer cell migration, invasion and MMP-9 activation
    • Brand S., Dambacher J., Beigel F., Olszak T., Diebold J., Otte J.M., et al. CXCR4 and CXCL12 are inversely expressed in colorectal cancer cells and modulate cancer cell migration, invasion and MMP-9 activation. Exp Cell Res 310 1 (2005) 117-130
    • (2005) Exp Cell Res , vol.310 , Issue.1 , pp. 117-130
    • Brand, S.1    Dambacher, J.2    Beigel, F.3    Olszak, T.4    Diebold, J.5    Otte, J.M.6
  • 26
    • 1542504148 scopus 로고    scopus 로고
    • Substantial reduction in risk of breast cancer associated with genetic polymorphisms in the promoters of the matrix metalloproteinase-2 and tissue inhibitor of metalloproteinase-2 genes
    • Zhou Y., Yu C., Miao X., Tan W., Liang G., Xiong P., et al. Substantial reduction in risk of breast cancer associated with genetic polymorphisms in the promoters of the matrix metalloproteinase-2 and tissue inhibitor of metalloproteinase-2 genes. Carcinogenesis 25 3 (2004) 399-404
    • (2004) Carcinogenesis , vol.25 , Issue.3 , pp. 399-404
    • Zhou, Y.1    Yu, C.2    Miao, X.3    Tan, W.4    Liang, G.5    Xiong, P.6
  • 27
    • 43249112740 scopus 로고    scopus 로고
    • Cystic fibrosis transmembrane conductance regulator (CFTR) gene 5T allele may protect against prostate cancer: a case-control study in Chinese Han population
    • Qiao D., Yi L., Hua L., Xu Z., Ding Y., Shi D., et al. Cystic fibrosis transmembrane conductance regulator (CFTR) gene 5T allele may protect against prostate cancer: a case-control study in Chinese Han population. J Cyst Fibros 7 3 (2008) 210-214
    • (2008) J Cyst Fibros , vol.7 , Issue.3 , pp. 210-214
    • Qiao, D.1    Yi, L.2    Hua, L.3    Xu, Z.4    Ding, Y.5    Shi, D.6
  • 28
    • 17644395600 scopus 로고    scopus 로고
    • Polymorphisms of vitamin D receptor gene protect against the risk of head and neck cancer
    • Liu Z., Calderon J.I., Zhang Z., Sturgis E.M., Spitz M.R., and Wei Q. Polymorphisms of vitamin D receptor gene protect against the risk of head and neck cancer. Pharmacogenet Genomics 15 3 (2005) 159-165
    • (2005) Pharmacogenet Genomics , vol.15 , Issue.3 , pp. 159-165
    • Liu, Z.1    Calderon, J.I.2    Zhang, Z.3    Sturgis, E.M.4    Spitz, M.R.5    Wei, Q.6
  • 30
    • 33845256051 scopus 로고    scopus 로고
    • Association of peroxisome proliferator-activated receptor delta +294T/C with body mass index and interaction with peroxisome proliferator-activated receptor alpha L162V
    • Aberle J., Hopfer I., Beil F.U., and Seedorf U. Association of peroxisome proliferator-activated receptor delta +294T/C with body mass index and interaction with peroxisome proliferator-activated receptor alpha L162V. Int J Obes (Lond) 30 12 (2006) 1709-1713
    • (2006) Int J Obes (Lond) , vol.30 , Issue.12 , pp. 1709-1713
    • Aberle, J.1    Hopfer, I.2    Beil, F.U.3    Seedorf, U.4
  • 31
    • 33746571068 scopus 로고    scopus 로고
    • IL-10, IL-6 and CD14 polymorphisms and sepsis outcome in ventilated Very Low Birth Weight infants
    • Baier R.J., Loggins J., and Yanamandra K. IL-10, IL-6 and CD14 polymorphisms and sepsis outcome in ventilated Very Low Birth Weight infants. BMC Med 4 1 (2006) 10
    • (2006) BMC Med , vol.4 , Issue.1 , pp. 10
    • Baier, R.J.1    Loggins, J.2    Yanamandra, K.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.