3.8

CiteScore

2.4

Impact Factor
  • ISSN 1674-8301
  • CN 32-1810/R
Ping Zeng, Yang Zhao, Cheng Qian, Liwei Zhang, Ruyang Zhang, Jianwei Gou, Jin Liu, Liya Liu, Feng Chen. Statistical analysis for genome-wide association study[J]. The Journal of Biomedical Research, 2015, 29(4): 285-297. DOI: 10.7555/JBR.29.20140007
Citation: Ping Zeng, Yang Zhao, Cheng Qian, Liwei Zhang, Ruyang Zhang, Jianwei Gou, Jin Liu, Liya Liu, Feng Chen. Statistical analysis for genome-wide association study[J]. The Journal of Biomedical Research, 2015, 29(4): 285-297. DOI: 10.7555/JBR.29.20140007

Statistical analysis for genome-wide association study

Funds: 

National Natural Science Foundation of China (No. 81072389, 81373102, 81473070 and 81402765), Research Found for the Doctoral Program of Higher Education of China (No. 20113234110002), Key Grant of Natural Science Foundation of the Jiangsu Higher Education Institutions of China (No. 10KJA330034), College Philosophy and Social Science Foundation from Education Department of Jiangsu Province of China (No. 2013SJB790059, 2013SJD790032), Research Foundation from Xuzhou Medical College (No. 2012KJ02), Research and Innovation Project for College Graduates of Jiangsu Province of China (No. CXLX13_574) and the Priority Academic Program Development of Jiangsu Higher Education Institutions (PAPD).

More Information
  • Received Date: January 14, 2014
  • In the past few years, genome-wide association study (GWAS) has made great successes in identifying genetie susceptibility loci underlying many complex diseases and traits. The findings provide important genetic insights into understanding pathogenesis of diseases. In this paper, we present an overview of widely used approaches and strategies for analysis of GWAS, offered a general consideration to deal with GWAS data. The issues regarding data quality control, population structure, association analysis, multiple comparison and visual presentation of GWAS results are discussed; other advanced topics including the issue of missing heritability, meta-analysis, set- based association analysis, copy number variation analysis and GWAS cohort analysis are also briefly introduced.
  • Related Articles

    [1]Fei Qin, Hao Yu, Changrong Xu, Huihui Chen, Jianling Bai. Safety of axitinib and sorafenib monotherapy for patients with renal cell carcinoma: a meta-analysis[J]. The Journal of Biomedical Research, 2018, 32(1): 30-38. DOI: 10.7555/JBR.32.20170080
    [2]Xu Hu, Linfei Jiang, Chenhui Tang, Yuehong Ju, Li Jiu, Yongyue Wei, Li Guo, Yang Zhao. Association of three single nucleotide polymorphisms of ESR1 with breast cancer susceptibility: a meta-analysis[J]. The Journal of Biomedical Research, 2017, 31(3): 213-225. DOI: 10.7555/JBR.31.20160087
    [3]Wei Qian, Kuanfeng Xu, Wenting Jia, Ling Lan, Xuqin Zheng, Xueyang Yang, Dai Cui. Association between TSHR gene polymorphism and the risk of Graves' disease: a meta-analysis[J]. The Journal of Biomedical Research, 2016, 30(6): 466-475. DOI: 10.7555/JBR.30.20140144
    [4]Peng Zou, Lin Zhao, Haitao Xu, Ping Chen, Aihua Gu, Ning Liu, Peng Zhao, Ailin Lu. Hsa-mir-499 rs3746444 polymorphism and cancer risk: a meta-analysis[J]. The Journal of Biomedical Research, 2012, 26(4): 253-259. DOI: 10.7555/JBR.26.20110122
    [5]Zhiqiang Yin, Jiali Xu, Dan Luo. Efficacy and tolerance of tacrolimus and pimecrolimus for atopic dermatitis: a meta-analysis[J]. The Journal of Biomedical Research, 2011, 25(6): 385-391. DOI: 10.1016/S1674-8301(11)60051-1
    [6]Liang Zong, Ping Chen, Yinbing Chen, Guohao Shi. Pouch Roux-en-Y vs No Pouch Roux-en-Y following total gastrectomy: a meta-analysis based on 12 studies[J]. The Journal of Biomedical Research, 2011, 25(2): 90-99. DOI: 10.1016/S1674-8301(11)60011-0
    [7]Lifeng Zhang, Ning Shao, Qianqian Yu, Lixin Hua, Yuanyuan Mi, Ninghan Feng. Association between p53 Pro72Arg polymorphism and prostate cancer risk: a meta-analysis[J]. The Journal of Biomedical Research, 2011, 25(1): 25-32. DOI: 10.1016/S1674-8301(11)60003-1
    [8]Donghua Li, Jie Wu. Association of the MTHFR C677T polymorphism and bone mineral density in postmenopausal women: a meta-analysis[J]. The Journal of Biomedical Research, 2010, 24(6): 417-423. DOI: 10.1016/S1674-8301(10)60056-5
    [9]Yuanyuan Mi, Qianqian Yu, Zhichao Min, Bin Xu, Lifeng Zhang, Wei Zhang, Ninghan Feng, Lixin Hua. Arg462Gln and Asp541Glu polymorphisms in ribonuclease L and prostate cancer risk: a meta-analysis[J]. The Journal of Biomedical Research, 2010, 24(5): 365-373. DOI: 10.1016/S1674-8301(10)60049-8
    [10]Bingbing Wei, Yunyun Zhang, Bo Xi, Junkai Chang, Jinming Bai, Jiantang Su. CYP17 T27C polymorphism and prostate cancer risk:a meta-analysis based on 31 studies[J]. The Journal of Biomedical Research, 2010, 24(3): 233-241.
  • Cited by

    Periodical cited type(25)

    1. Song P, Liu T, Zhang Y, et al. Traditional Chinese medicine in the treatment of breast Cancer. Mol Cancer, 2025, 24(1): 209. DOI:10.1186/s12943-025-02416-5
    2. Sumorek-Wiadro J, Kapral-Piotrowska J, Zając A, et al. Proapoptotic and antimigration properties of osthole in combination with LY294002 against human glioma cells. Naunyn Schmiedebergs Arch Pharmacol, 2025, 398(3): 3147-3161. DOI:10.1007/s00210-024-03424-w
    3. Kordulewska NK, Król-Grzymała A. The Effect of Osthole on Transient Receptor Potential Channels: A Possible Alternative Therapy for Atopic Dermatitis. J Inflamm Res, 2024, 17: 881-898. DOI:10.2147/JIR.S425978
    4. Kordulewska NK, Król-Grzymała A. The Effect of Osthole on Transient Receptor Potential Channels: A Possible Alternative Therapy for Atopic Dermatitis. J Inflamm Res, 2024, 17: 881-898. DOI:10.2147/JIR.S425978
    5. Naeem A, Hu P, Yang M, et al. Natural Products as Anticancer Agents: Current Status and Future Perspectives. Molecules, 2022, 27(23): 8367. DOI:10.3390/molecules27238367
    6. Naeem A, Hu P, Yang M, et al. Natural Products as Anticancer Agents: Current Status and Future Perspectives. Molecules, 2022, 27(23): 8367. DOI:10.3390/molecules27238367
    7. Kordulewska NK, Topa J, Rozmus D, et al. Effects of Osthole on Inflammatory Gene Expression and Cytokine Secretion in Histamine-Induced Inflammation in the Caco-2 Cell Line. Int J Mol Sci, 2021, 22(24): 13634. DOI:10.3390/ijms222413634
    8. Mei J, Wang T, Zhao S, et al. Osthole Inhibits Breast Cancer Progression through Upregulating Tumor Suppressor GNG7. J Oncol, 2021, 2021: 6610511. DOI:10.1155/2021/6610511
    9. Mei J, Wang T, Zhao S, et al. Osthole Inhibits Breast Cancer Progression through Upregulating Tumor Suppressor GNG7. J Oncol, 2021, 2021: 6610511. DOI:10.1155/2021/6610511
    10. Abosharaf HA, Diab T, Atlam FM, et al. Osthole extracted from a citrus fruit that affects apoptosis on A549 cell line by histone deacetylasese inhibition (HDACs). Biotechnol Rep (Amst), 2020, 28: e00531. DOI:10.1016/j.btre.2020.e00531
    11. Ávalos-Moreno M, López-Tejada A, Blaya-Cánovas JL, et al. Drug Repurposing for Triple-Negative Breast Cancer. J Pers Med, 2020, 10(4): 200. DOI:10.3390/jpm10040200
    12. Kordulewska NK, Topa J, Tańska M, et al. Modulatory Effects of Osthole on Lipopolysaccharides-Induced Inflammation in Caco-2 Cell Monolayer and Co-Cultures with THP-1 and THP-1-Derived Macrophages. Nutrients, 2020, 13(1): 123. DOI:10.3390/nu13010123
    13. Ye J, Sun D, Yu Y, et al. Osthole resensitizes CD133+ hepatocellular carcinoma cells to cisplatin treatment via PTEN/AKT pathway. Aging (Albany NY), 2020, 12(14): 14406-14417. DOI:10.18632/aging.103484
    14. Wang B, Shen C, Li Y, et al. Oridonin overcomes the gemcitabine resistant PANC-1/Gem cells by regulating GST pi and LRP/1 ERK/JNK signalling. Onco Targets Ther, 2019, 12: 5751-5765. DOI:10.2147/OTT.S208924
    15. Wang B, Shen C, Li Y, et al. Oridonin overcomes the gemcitabine resistant PANC-1/Gem cells by regulating GST pi and LRP/1 ERK/JNK signalling. Onco Targets Ther, 2019, 12: 5751-5765. DOI:10.2147/OTT.S208924
    16. Yang Y, Ren F, Tian Z, et al. Osthole Synergizes With HER2 Inhibitor, Trastuzumab in HER2-Overexpressed N87 Gastric Cancer by Inducing Apoptosis and Inhibition of AKT-MAPK Pathway. Front Pharmacol, 2018, 9: 1392. DOI:10.3389/fphar.2018.01392
    17. Liu Y, Dong X, Wang W, et al. Molecular Mechanisms of Apoptosis in HepaRG Cell Line Induced by Polyphyllin VI via the Fas Death Pathway and Mitochondrial-Dependent Pathway. Toxins (Basel), 2018, 10(5): 201. DOI:10.3390/toxins10050201
    18. Zhang S, Huang Q, Cai X, et al. Osthole Ameliorates Renal Fibrosis in Mice by Suppressing Fibroblast Activation and Epithelial-Mesenchymal Transition. Front Physiol, 2018, 9: 1650. DOI:10.3389/fphys.2018.01650
    19. Liu Y, Dong X, Wang W, et al. Molecular Mechanisms of Apoptosis in HepaRG Cell Line Induced by Polyphyllin VI via the Fas Death Pathway and Mitochondrial-Dependent Pathway. Toxins (Basel), 2018, 10(5): 201. DOI:10.3390/toxins10050201
    20. Zhu X, Song X, Xie K, et al. Osthole induces apoptosis and suppresses proliferation via the PI3K/Akt pathway in intrahepatic cholangiocarcinoma. Int J Mol Med, 2017, 40(4): 1143-1151. DOI:10.3892/ijmm.2017.3113
    21. Feng H, Lu JJ, Wang Y, et al. Osthole inhibited TGF β-induced epithelial-mesenchymal transition (EMT) by suppressing NF-κB mediated Snail activation in lung cancer A549 cells. Cell Adh Migr, 2017, 11(5-6): 464-475. DOI:10.1080/19336918.2016.1259058
    22. Li H, Wang Q, Dong L, et al. Morusin suppresses breast cancer cell growth in vitro and in vivo through C/EBPβ and PPARγ mediated lipoapoptosis. J Exp Clin Cancer Res, 2015, 34: 137. DOI:10.1186/s13046-015-0252-4
    23. Yang M, Zhu H, Hu T, et al. Association of CCND1 gene polymorphism with cervical cancer susceptibility in Caucasian population: a meta-analysis. Int J Clin Exp Med, 2015, 8(8): 12983-8.
    24. Ying J, Xu H, Wu D, et al. Emodin induces apoptosis of human osteosarcoma cells via mitochondria- and endoplasmic reticulum stress-related pathways. Int J Clin Exp Pathol, 2015, 8(10): 12837-44.
    25. Yang M, Zhu H, Hu T, et al. Association of CCND1 gene polymorphism with cervical cancer susceptibility in Caucasian population: a meta-analysis. Int J Clin Exp Med, 2015, 8(8): 12983-8.

    Other cited types(0)

Catalog

    Feng Chen

    1. On this Site
    2. On Google Scholar
    3. On PubMed

    Article Metrics

    Article views (4944) PDF downloads (916) Cited by(25)
    Related

    /

    DownLoad:  Full-Size Img  PowerPoint
    Return
    Return