A computational pipeline for the development of multi-marker bio-signature panels and ensemble classifiers
暂无分享,去创建一个
Raymond T. Ng | Bruce McManus | Scott J. Tebbutt | Gabriela V. Cohen Freue | Robert Balshaw | W. Robert McMaster | Zsuzsanna Hollander | Mandeep Takhar | Paul Keown | Virginia Chen | Oliver P. Günther | B. McManus | R. Ng | W. McMaster | R. Balshaw | S. Tebbutt | P. Keown | Z. Hollander | O. Günther | V. Chen | G. C. Freue | Mandeep Takhar
[1] B. McManus,et al. Functional Genomic Analysis of Peripheral Blood During Early Acute Renal Allograft Rejection , 2009, Transplantation.
[2] Tariq Habib Afridi,et al. Mito-GSAAC: mitochondria prediction using genetic ensemble classifier and split amino acid composition , 2012, Amino Acids.
[3] J. D. de Fijter,et al. Rejection and function and chronic allograft dysfunction. , 2010, Kidney international. Supplement.
[4] Philippe Besse,et al. Statistical Applications in Genetics and Molecular Biology A Sparse PLS for Variable Selection when Integrating Omics Data , 2011 .
[5] Constantin F. Aliferis,et al. GEMS: A system for automated cancer diagnosis and biomarker discovery from microarray gene expression data , 2005, Int. J. Medical Informatics.
[6] Gordon K Smyth,et al. Statistical Applications in Genetics and Molecular Biology Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments , 2011 .
[7] Audrey Kauffmann,et al. Bioinformatics Applications Note Arrayqualitymetrics—a Bioconductor Package for Quality Assessment of Microarray Data , 2022 .
[8] Glenda C Gobe,et al. Biomarkers in chronic kidney disease: a review. , 2011, Kidney international.
[9] Raymond T. Ng,et al. A Model-Based Ensembling Approach for Developing QSARs , 2009, J. Chem. Inf. Model..
[10] R. Vanholder,et al. ACUTE KIDNEY INJURY IN SOLID ORGAN TRANSPLANT RECIPIENTS , 2007, Acta clinica Belgica.
[11] Gunnar Rätsch,et al. Support Vector Machines and Kernels for Computational Biology , 2008, PLoS Comput. Biol..
[12] Meenakshi Verma,et al. Advances of genomic science and systems biology in renal transplantation: a review , 2011, Seminars in Immunopathology.
[13] Klaus Obermayer,et al. A new summarization method for affymetrix probe level data , 2006, Bioinform..
[14] Ruben H. Zamar,et al. MDQC: a new quality assessment method for microarrays based on quality control reports , 2007, Bioinform..
[15] Y. Benjamini,et al. Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .
[16] Rafael A. Irizarry,et al. A Model-Based Background Adjustment for Oligonucleotide Expression Arrays , 2004 .
[17] Timothy J. Triche,et al. Whole blood genomic biomarkers of acute cardiac allograft rejection. , 2009, The Journal of heart and lung transplantation : the official publication of the International Society for Heart Transplantation.
[18] Klaus Nordhausen,et al. The Elements of Statistical Learning: Data Mining, Inference, and Prediction, Second Edition by Trevor Hastie, Robert Tibshirani, Jerome Friedman , 2009 .
[19] B. McManus,et al. Effects of Sample Timing and Treatment on Gene Expression in Early Acute Renal Allograft Rejection , 2011, Transplantation.
[20] Trevor Hastie,et al. Regularization Paths for Generalized Linear Models via Coordinate Descent. , 2010, Journal of statistical software.
[21] Jing Zhao,et al. Biomarkers for the diagnosis, prognosis, and evaluation of treatment efficacy for traumatic brain injury , 2011, Neurotherapeutics.
[22] R. Tibshirani,et al. Significance analysis of microarrays applied to the ionizing radiation response , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[23] T. Speed,et al. Summaries of Affymetrix GeneChip probe level data. , 2003, Nucleic acids research.
[24] Daniel Bernstein,et al. Gene expression profiling distinguishes a molecular signature for grade 1B mild acute cellular rejection in cardiac allograft recipients. , 2007, The Journal of heart and lung transplantation : the official publication of the International Society for Heart Transplantation.
[25] S. Horvath,et al. Kidney Transplant Rejection and Tissue Injury by Gene Profiling of Biopsies and Peripheral Blood Lymphocytes , 2004, American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons.
[26] Leo Breiman,et al. Random Forests , 2001, Machine Learning.
[27] Sunho Lee,et al. Mistakes in validating the accuracy of a prediction classifier in high-dimensional but small-sample microarray data , 2008, Statistical methods in medical research.
[28] Byoung-Tak Zhang,et al. Ensemble Learning with Active Example Selection for Imbalanced Biomedical Data Classification , 2011, IEEE/ACM Transactions on Computational Biology and Bioinformatics.
[29] Christoph H. Borchers,et al. Proteomic Signatures in Plasma during Early Acute Renal Allograft Rejection* , 2010, Molecular & Cellular Proteomics.
[30] Ashutosh Kumar Singh,et al. The Elements of Statistical Learning: Data Mining, Inference, and Prediction , 2010 .
[31] I. Yang,et al. Multi-platform, multi-site, microarray-based human tumor classification. , 2004, The American journal of pathology.
[32] R. Polikar,et al. Ensemble based systems in decision making , 2006, IEEE Circuits and Systems Magazine.
[33] Raymond T. Ng,et al. Computational Biomarker Pipeline from Discovery to Clinical Implementation: Plasma Proteomic Biomarkers for Cardiac Transplantation , 2013, PLoS Comput. Biol..
[34] R. Tibshirani,et al. Diagnosis of multiple cancer types by shrunken centroids of gene expression , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[35] H. Horvitz,et al. MicroRNA expression profiles classify human cancers , 2005, Nature.
[36] R. Gentleman,et al. Independent filtering increases detection power for high-throughput experiments , 2010, Proceedings of the National Academy of Sciences.
[37] Robert A. Legenstein,et al. Combining predictions for accurate recommender systems , 2010, KDD.
[38] Chris Harbron,et al. RefPlus: an R package extending the RMA Algorithm , 2007, Bioinform..
[39] S. Dudoit,et al. Multiple Hypothesis Testing in Microarray Experiments , 2003 .
[40] J. Yates,et al. Biomarkers for Early and Late Stage Chronic Allograft Nephropathy by Proteogenomic Profiling of Peripheral Blood , 2009, PloS one.
[41] Jiri Matas,et al. On Combining Classifiers , 1998, IEEE Trans. Pattern Anal. Mach. Intell..
[42] H. E. Hansen,et al. The Banff 97 working classification of renal allograft pathology. , 1999, Kidney international.
[43] Bor-Wen Cheng,et al. Diagnosing Breast Masses in Digital Mammography Using Feature Selection and Ensemble Methods , 2012, Journal of Medical Systems.
[44] T. Poggio,et al. Multiclass cancer diagnosis using tumor gene expression signatures , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[45] Lior Rokach,et al. Ensemble-based classifiers , 2010, Artificial Intelligence Review.
[46] Ludmila I. Kuncheva,et al. Measures of Diversity in Classifier Ensembles and Their Relationship with the Ensemble Accuracy , 2003, Machine Learning.
[47] R. Vasan,et al. Biomarkers of Cardiovascular Disease: Molecular Basis and Practical Considerations , 2006, Circulation.
[48] Zhengdong Cai,et al. An integrative multi-platform analysis for discovering biomarkers of osteosarcoma , 2009, BMC Cancer.
[49] Atul J. Butte,et al. Ten Years of Pathway Analysis: Current Approaches and Outstanding Challenges , 2012, PLoS Comput. Biol..