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  • 1
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    Online Resource
    Abstract 4094: Identification of novel breast cancer methylation biomarkers by global demethylation, cDNA microarray, and quantitative methylation analysis
    American Association for Cancer Research (AACR) ; 2012
    In:  Cancer Research Vol. 72, No. 8_Supplement ( 2012-04-15), p. 4094-4094
    Details
    In: Cancer Research, American Association for Cancer Research (AACR), Vol. 72, No. 8_Supplement ( 2012-04-15), p. 4094-4094
    Abstract: Aberrant DNA methylation is commonly found in breast cancer. Hypermethylation of CpG islands located in promoter regions of genes may result in translational gene silencing and thus play an important role in carcinogenesis. It has been documented that multiple genes involved in cell cycle regulation, apoptosis, DNA repair, hormone regulation, cell adhesion and invasion, angiogenesis, and cellular growth-inhibitory signaling pathways are hypermethylated in breast cancer. To identify additional hypermethylated genes, we conducted a global demethylation experiment using breast cancer cell lines, followed by gene expression microarray and DNA methylation analyses. Breast cancer MCF-7 cells were treated with 5-aza-2′-deoxycytidine (5-aza-dC) and trichostatin A (TSA). Gene expression profiles between 5-aza-dC/TSA treated and untreated cells were compared using the Affymetrix GeneChip Human Genome U133 Plus 2.0 Array. Expression levels of 195 genes were up-regulated at least two-fold by demethylation treatment of the MCF-7 cells. Expression levels of 16 cancer-related genes were selected for confirmation in six additional breast cancer cell lines using quantitative real-time PCR. Expression of 13 of these genes (APLP1, CARHSP1, CDKN2D, CKMT1A, FSCN1, GPX3, HBEGF, HIC2, HSPA2, NOV, S100A6, SERPINI1, and ZNF238) was confirmed to be significantly increased after 5-aza-dC/TSA treatment. Promoter methylation status of these 13 genes was examined in seven breast cancer cell lines using Sequenom MassARRAY quantitative methylation analysis. Promoter CpG island methylation of 6 genes was observed in all 7 breast cancer cell lines. The ZNF238 and HSPA2 genes had the most methylated CpG sites (each has 11 methylated CpG sites) and highest percentage of methylation in the promoter region tested in the study. In summary, we identified promoter hypermethylation in 6 cancer-related genes, including ZNF238 and HSPA2, in breast cancer cell lines. These genes may play a role in breast carcinogenesis. Further studies using human breast cancer samples are warranted to confirm these findings. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 103rd Annual Meeting of the American Association for Cancer Research; 2012 Mar 31-Apr 4; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2012;72(8 Suppl):Abstract nr 4094. doi:1538-7445.AM2012-4094
    Type of Medium: Online Resource
    ISSN: 0008-5472 , 1538-7445
    URL: Article
    DOI: 10.1158/1538-7445.AM2012-4094
    RVK:
    XA 36000
    RVK:
    XA 10000
    Language: English
    Publisher: American Association for Cancer Research (AACR)
    Publication Date: 2012
    detail.hit.zdb_id: 2036785-5
    detail.hit.zdb_id: 1432-1
    detail.hit.zdb_id: 410466-3
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  • 2
    Online Resource
    Online Resource
    Association of Leukocyte Mitochondrial DNA Copy Number with Colorectal Cancer Risk: Results from the Shanghai Women's Health Study
    American Association for Cancer Research (AACR) ; 2014
    In:  Cancer Epidemiology, Biomarkers & Prevention Vol. 23, No. 11 ( 2014-11-01), p. 2357-2365
    Details
    In: Cancer Epidemiology, Biomarkers & Prevention, American Association for Cancer Research (AACR), Vol. 23, No. 11 ( 2014-11-01), p. 2357-2365
    Abstract: Background: Mitochondria play an important role in cellular energy metabolism, free radical production, and apoptosis, and thus may be involved in cancer development. Methods: We evaluated mitochondrial DNA (mtDNA) copy number in peripheral leukocytes in relation to colorectal cancer risk in a case–control study of 444 colorectal cancer cases and 1,423 controls nested in the Shanghai Women's Health Study, a population-based, prospective cohort study. Relative mtDNA copy number was determined by a quantitative real-time PCR assay using peripheral leukocyte DNA samples collected at the time of study enrollment, before cancer diagnosis. Results: We found that baseline mtDNA copy number was lower among women who subsequently developed colorectal cancer [geometric mean, 0.277; 95% confidence interval (CI), 0.269–0.285] than among women who remained cancer-free (geometric mean, 0.288; 95% CI, 0.284–0.293; P = 0.0153). Multivariate adjusted ORs were 1.26 (95% CI, 0.93–1.70) and 1.44 (95% CI, 1.06–1.94) for the middle and lower tertiles of mtDNA copy number, respectively, compared with the upper tertile (highest mtDNA copy number; Ptrend = 0.0204). The association varied little by the interval between blood collection and cancer diagnosis. Conclusions: Our data suggest that mtDNA copy number measured in peripheral leukocytes may be a potential biomarker useful for colorectal cancer risk assessment. Impact: If confirmed, mtDNA copy number measured in peripheral leukocytes may be a biomarker useful for colorectal cancer risk assessment. Cancer Epidemiol Biomarkers Prev; 23(11); 2357–65. ©2014 AACR.
    Type of Medium: Online Resource
    ISSN: 1055-9965 , 1538-7755
    URL: Article
    DOI: 10.1158/1055-9965.EPI-14-0297
    Language: English
    Publisher: American Association for Cancer Research (AACR)
    Publication Date: 2014
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    detail.hit.zdb_id: 1153420-5
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  • 3
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    Online Resource
    The EGFR Polymorphism rs884419 is Associated With Freedom From Recurrence in Patients With Resected Prostate Cancer
    Ovid Technologies (Wolters Kluwer Health) ; 2010
    In:  Journal of Urology Vol. 183, No. 5 ( 2010-05), p. 2062-2069
    Details
    In: Journal of Urology, Ovid Technologies (Wolters Kluwer Health), Vol. 183, No. 5 ( 2010-05), p. 2062-2069
    Type of Medium: Online Resource
    ISSN: 0022-5347 , 1527-3792
    URL: Article
    DOI: 10.1016/j.juro.2009.12.098
    RVK:
    XA 10000
    Language: English
    Publisher: Ovid Technologies (Wolters Kluwer Health)
    Publication Date: 2010
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  • 4
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    Association of a single nucleotide polymorphism at 6q25.1,rs2046210, with endometrial cancer risk among Chinese women
    Editorial Office of Chinese Journal of Cancer ; 2011
    In:  Chinese Journal of Cancer Vol. 30, No. 2 ( 2011-2-5), p. 138-143
    Details
    In: Chinese Journal of Cancer, Editorial Office of Chinese Journal of Cancer, Vol. 30, No. 2 ( 2011-2-5), p. 138-143
    Type of Medium: Online Resource
    ISSN: 1000-467X , 1944-446X
    URL: Article
    DOI: 10.5732/cjc.010.10516
    Language: Unknown
    Publisher: Editorial Office of Chinese Journal of Cancer
    Publication Date: 2011
    detail.hit.zdb_id: 2439836-6
    detail.hit.zdb_id: 2922913-3
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  • 5
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    Online Resource
    Mutations in the mitochondrial DNA D-loop region and breast cancer risk
    Springer Science and Business Media LLC ; 2010
    In:  Breast Cancer Research and Treatment Vol. 119, No. 2 ( 2010-1), p. 431-436
    Details
    In: Breast Cancer Research and Treatment, Springer Science and Business Media LLC, Vol. 119, No. 2 ( 2010-1), p. 431-436
    Type of Medium: Online Resource
    ISSN: 0167-6806 , 1573-7217
    URL: Article
    DOI: 10.1007/s10549-009-0397-y
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2010
    detail.hit.zdb_id: 2004077-5
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  • 6
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    Online Resource
    Abstract 891: Association of genetic polymorphisms of SIPA1 with breast cancer risk and survival among Chinese women
    American Association for Cancer Research (AACR) ; 2010
    In:  Cancer Research Vol. 70, No. 8_Supplement ( 2010-04-15), p. 891-891
    Details
    In: Cancer Research, American Association for Cancer Research (AACR), Vol. 70, No. 8_Supplement ( 2010-04-15), p. 891-891
    Abstract: Signal-induced proliferation-associated gene 1 (Sipa1), encodes a GTPase-activating protein (GAP), was identified as a candidate host metastasis-regulatory factor in mice. Several epidemiological studies have shown that SIPA1 may play an important role in breast cancer risk and metastasis with inconsistent results. We evaluated functional single nucleotide polymorphisms (SNPs) in SIPA1 in relation to breast cancer risk and survival in Chinese women. Included in the study were 1,134 cases and 1,234 age frequency-matched community controls that participated in the Shanghai Breast Cancer Study, a large scale population-basd case-control study. Breast cancer patients were followed to determine intervals of overall survival and disease-free survival. Functional SNPs were genotyped using TaqMan assays. Additional SNPs in this gene region, both genotyped and imputed from a genome-wide association study, were also included in the analyses. The SIPA1 polymorphisms were not associated with breast cancer risk. We found SIPA1 polymorphisms were associated with breast cancer overall survival. Patients carrying the GA/AA genotypes in the synonymous exonic SNP rs746429 were associated with a marginally significant poor overall survival (HR =1.2, 95% CI, 0.9-1.6) as compared with the common GG genotype. Furthermore, this association was more evident among patients with an early stage cancer (HR =1.4, 95% CI, 1.0-1.9) than those with a late stage cancer (HR=1.2, 95% CI, 0.7-2.1). Patients carrying the AA genotype of rs3741378, a nonsynonymous exonic SNP, were associated with a better overall survival (HR =0.6, 95% CI, 0.4-1.0) as compared to those with the common GG genotype. We found that the SIPA1 polymorphisms were not associated with disease-free survival. Our findings suggested that common SIPA1 genetic polymorphisms may be associated with breast cancer progression. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 101st Annual Meeting of the American Association for Cancer Research; 2010 Apr 17-21; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2010;70(8 Suppl):Abstract nr 891.
    Type of Medium: Online Resource
    ISSN: 0008-5472 , 1538-7445
    URL: Article
    DOI: 10.1158/1538-7445.AM10-891
    RVK:
    XA 36000
    RVK:
    XA 10000
    Language: English
    Publisher: American Association for Cancer Research (AACR)
    Publication Date: 2010
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    detail.hit.zdb_id: 1432-1
    detail.hit.zdb_id: 410466-3
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  • 7
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    Online Resource
    Abstract 2781: Expression patterns of the ERBB2 gene and its splice variant in mammary tissues and their associations with breast risk and survival
    American Association for Cancer Research (AACR) ; 2010
    In:  Cancer Research Vol. 70, No. 8_Supplement ( 2010-04-15), p. 2781-2781
    Details
    In: Cancer Research, American Association for Cancer Research (AACR), Vol. 70, No. 8_Supplement ( 2010-04-15), p. 2781-2781
    Abstract: Alternative splicing generates different transcripts from the same precursor mRNA. ERBB2 proto-oncogene is involved in the growth, invasion, and prognosis of breast cancer. The ERBB2-sp is a splice variant of ERBB2 that lacks the intracellular and transmembrane domains, which may alter the function of the ERBB2 gene. We hypothesize that the ERBB2-sp and the wild type ERBB2 gene may play a different role in the development and prognosis of breast cancer, and thus compared ERBB2 and ERBB2-sp mRNA expression in tumor tissue and adjacent non-tumor tissue in both breast cancer patients and benign breast disease (BBD) patients. Included in the study were 515 patients diagnosed with breast cancer and 206 patients diagnosed with BBD. These women were recruited as part of the Shanghai Breast Cancer Study and they provided samples of tumor tissue and adjacent non-tumor tissue to the study. Tumor tissues from patients with breast cancer had substantially higher levels of ERBB2 expression than those from patients with BBD (81vs 37, P & lt; 0.0001). On the other hand, adjacent non-tumor tissues from patients with breast cancer had substantially lower levels of ERBB2 expression than those from patients with BBD (20 vs 34, p=0.0254). In breast cancer cases, ERBB2 expression in tumor tissue was significantly higher than that in their paired adjacent non-tumor tissue (p=0.0028). No significant difference of ERBB-sp expression levels was found in any of the following comparisons, tumor tissues or adjacent normal tissues between breast cancer patients and BBD controls as well as between the tumor tissues and adjacent normal tissues in both breast cancer and BBD patients. In the comparison of tumor tissues between breast cancer patients and BBD controls, the ratio of ERBB2 to ERBB2-sp expression levels (ERBB2 /ERBB2-sp index) in tumor tissue was associated with a significantly increased breast cancer risk in a linear manner, with adjusted odds ratios (95% CI) increased from 1.00 (reference) to 1.33 (0.84-2.13), 1.82 (1.13-2.94), and 2.63(1.55-4.43) (P for trend & lt;0.001) from the lowest to the highest quintiles of expression groups. However, there were no apparent associations of expressions of ERBB2 and ERBB2-sp, or ERBB2/ERBB2-sp index in cancer tissue with either overall survival or disease-free survival. Our findings suggest that the expression of ERBB2 and its splice variant ERBB2-sp may play a different role in the development, but not prognosis, of breast cancer. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 101st Annual Meeting of the American Association for Cancer Research; 2010 Apr 17-21; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2010;70(8 Suppl):Abstract nr 2781.
    Type of Medium: Online Resource
    ISSN: 0008-5472 , 1538-7445
    URL: Article
    DOI: 10.1158/1538-7445.AM10-2781
    RVK:
    XA 36000
    RVK:
    XA 10000
    Language: English
    Publisher: American Association for Cancer Research (AACR)
    Publication Date: 2010
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    detail.hit.zdb_id: 1432-1
    detail.hit.zdb_id: 410466-3
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  • 8
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    Online Resource
    An evaluation of allele frequency estimation accuracy using pooled sequencing data
    Inderscience Publishers ; 2013
    In:  International Journal of Computational Biology and Drug Design Vol. 6, No. 4 ( 2013), p. 279-
    Details
    In: International Journal of Computational Biology and Drug Design, Inderscience Publishers, Vol. 6, No. 4 ( 2013), p. 279-
    Type of Medium: Online Resource
    ISSN: 1756-0756 , 1756-0764
    URL: Article
    DOI: 10.1504/IJCBDD.2013.056709
    Language: English
    Publisher: Inderscience Publishers
    Publication Date: 2013
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