IDEAS home Printed from https://ideas.repec.org/a/eee/csdana/v104y2016icp66-78.html
   My bibliography  Save this article

Integrative weighted group lasso and generalized local quadratic approximation

Author

Listed:
  • Pan, Qing
  • Zhao, Yunpeng

Abstract

Longitudinal clinical outcomes are often collected in genomic studies, where selection methods accounting for dynamic effects of biomarkers are desirable. Biomarker effects can be modeled by nonparametric B-splines and selected by group lasso. A novel weight function is proposed based on the extremum of the biomarker effects over time for the penalty. In addition to the common practice treating weights as adaptive functions depending on some first-stage estimates, an integrative group lasso which treats the loss, penalty and weight functions as an integrative whole is proposed, where parameters in all three are jointly estimated in one step. Generalized local quadratic approximations are developed to optimize the integrative group lasso whose guidelines are applicable in a wide range of non-convex optimization problems. The integrative version has theoretical advantages as it requires weaker assumptions in achieving consistency and sparsistency. Both adaptive and integrative procedures show larger areas under the ROC curves as well as smaller biases and mean square prediction errors over unweighted group lasso in simulation studies. Finally, the proposed method is illustrated on the GWAS from the Epidemiology and Intervention of Diabetes Complication trial. To accommodate more candidate markers, 23 chromosomes are analyzed separately with common tuning parameters.

Suggested Citation

  • Pan, Qing & Zhao, Yunpeng, 2016. "Integrative weighted group lasso and generalized local quadratic approximation," Computational Statistics & Data Analysis, Elsevier, vol. 104(C), pages 66-78.
    • Handle: RePEc:eee:csdana:v:104:y:2016:i:c:p:66-78
    DOI: 10.1016/j.csda.2016.06.004
    as

    Download full text from publisher

    File URL: http://www.sciencedirect.com/science/article/pii/S0167947316301414
    Download Restriction: Full text for ScienceDirect subscribers only.
    File URL: https://libkey.io/10.1016/j.csda.2016.06.004?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    References listed on IDEAS

    as
    1. Zou, Hui, 2006. "The Adaptive Lasso and Its Oracle Properties," Journal of the American Statistical Association, American Statistical Association, vol. 101, pages 1418-1429, December.
    2. Jiahua Chen & Zehua Chen, 2008. "Extended Bayesian information criteria for model selection with large model spaces," Biometrika, Biometrika Trust, vol. 95(3), pages 759-771.
    3. Brendan Maher, 2008. "Personal genomes: The case of the missing heritability," Nature, Nature, vol. 456(7218), pages 18-21, November.
    4. Huaihou Chen & Yuanjia Wang, 2011. "A Penalized Spline Approach to Functional Mixed Effects Model Analysis," Biometrics, The International Biometric Society, vol. 67(3), pages 861-870, September.
    5. Fan J. & Li R., 2001. "Variable Selection via Nonconcave Penalized Likelihood and its Oracle Properties," Journal of the American Statistical Association, American Statistical Association, vol. 96, pages 1348-1360, December.
    6. Ming Yuan & Yi Lin, 2006. "Model selection and estimation in regression with grouped variables," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 68(1), pages 49-67, February.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Jonathan Boss & Alexander Rix & Yin‐Hsiu Chen & Naveen N. Narisetty & Zhenke Wu & Kelly K. Ferguson & Thomas F. McElrath & John D. Meeker & Bhramar Mukherjee, 2021. "A hierarchical integrative group least absolute shrinkage and selection operator for analyzing environmental mixtures," Environmetrics, John Wiley & Sons, Ltd., vol. 32(8), December.

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Gabriel E Hoffman & Benjamin A Logsdon & Jason G Mezey, 2013. "PUMA: A Unified Framework for Penalized Multiple Regression Analysis of GWAS Data," PLOS Computational Biology, Public Library of Science, vol. 9(6), pages 1-19, June.
    2. Qingliang Fan & Yaqian Wu, 2020. "Endogenous Treatment Effect Estimation with some Invalid and Irrelevant Instruments," Papers 2006.14998, arXiv.org.
    3. Luke Mosley & Idris A. Eckley & Alex Gibberd, 2022. "Sparse temporal disaggregation," Journal of the Royal Statistical Society Series A, Royal Statistical Society, vol. 185(4), pages 2203-2233, October.
    4. Zhang, Shucong & Zhou, Yong, 2018. "Variable screening for ultrahigh dimensional heterogeneous data via conditional quantile correlations," Journal of Multivariate Analysis, Elsevier, vol. 165(C), pages 1-13.
    5. Heng Lian, 2012. "Variable selection in high-dimensional partly linear additive models," Journal of Nonparametric Statistics, Taylor & Francis Journals, vol. 24(4), pages 825-839, December.
    6. Yawei He & Zehua Chen, 2016. "The EBIC and a sequential procedure for feature selection in interactive linear models with high-dimensional data," Annals of the Institute of Statistical Mathematics, Springer;The Institute of Statistical Mathematics, vol. 68(1), pages 155-180, February.
    7. Benjamin G. Stokell & Rajen D. Shah & Ryan J. Tibshirani, 2021. "Modelling high‐dimensional categorical data using nonconvex fusion penalties," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 83(3), pages 579-611, July.
    8. Luke Mosley & Idris Eckley & Alex Gibberd, 2021. "Sparse Temporal Disaggregation," Papers 2108.05783, arXiv.org, revised Oct 2022.
    9. Kaixu Yang & Tapabrata Maiti, 2022. "Ultrahigh‐dimensional generalized additive model: Unified theory and methods," Scandinavian Journal of Statistics, Danish Society for Theoretical Statistics;Finnish Statistical Society;Norwegian Statistical Association;Swedish Statistical Association, vol. 49(3), pages 917-942, September.
    10. Lian, Heng, 2014. "Semiparametric Bayesian information criterion for model selection in ultra-high dimensional additive models," Journal of Multivariate Analysis, Elsevier, vol. 123(C), pages 304-310.
    11. Wei Sun & Lexin Li, 2012. "Multiple Loci Mapping via Model-free Variable Selection," Biometrics, The International Biometric Society, vol. 68(1), pages 12-22, March.
    12. Juntao Wang & Yuan Li, 2023. "DINA Model with Entropy Penalization," Mathematics, MDPI, vol. 11(18), pages 1-16, September.
    13. Yanhang Zhang & Junxian Zhu & Jin Zhu & Xueqin Wang, 2023. "A Splicing Approach to Best Subset of Groups Selection," INFORMS Journal on Computing, INFORMS, vol. 35(1), pages 104-119, January.
    14. Zhihua Sun & Yi Liu & Kani Chen & Gang Li, 2022. "Broken adaptive ridge regression for right-censored survival data," Annals of the Institute of Statistical Mathematics, Springer;The Institute of Statistical Mathematics, vol. 74(1), pages 69-91, February.
    15. Burman, Prabir & Paul, Debashis, 2017. "Smooth predictive model fitting in regression," Journal of Multivariate Analysis, Elsevier, vol. 155(C), pages 165-179.
    16. Zhou Yu & Yuexiao Dong & Li-Xing Zhu, 2016. "Trace Pursuit: A General Framework for Model-Free Variable Selection," Journal of the American Statistical Association, Taylor & Francis Journals, vol. 111(514), pages 813-821, April.
    17. Jie Ding & Vahid Tarokh & Yuhong Yang, 2018. "Model Selection Techniques -- An Overview," Papers 1810.09583, arXiv.org.
    18. Xiangyu Wang & Chenlei Leng, 2016. "High dimensional ordinary least squares projection for screening variables," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 78(3), pages 589-611, June.
    19. Lian, Heng & Meng, Jie & Zhao, Kaifeng, 2015. "Spline estimator for simultaneous variable selection and constant coefficient identification in high-dimensional generalized varying-coefficient models," Journal of Multivariate Analysis, Elsevier, vol. 141(C), pages 81-103.
    20. Tutz, Gerhard & Pößnecker, Wolfgang & Uhlmann, Lorenz, 2015. "Variable selection in general multinomial logit models," Computational Statistics & Data Analysis, Elsevier, vol. 82(C), pages 207-222.

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:eee:csdana:v:104:y:2016:i:c:p:66-78. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Catherine Liu (email available below). General contact details of provider: http://www.elsevier.com/locate/csda .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.