iBAG: integrative Bayesian analysis of high-dimensional multiplatform genomics data
暂无分享,去创建一个
Jeffrey S. Morris | Kim-Anh Do | Veerabhadran Baladandayuthapani | Bradley M. Broom | Wenting Wang | Ganiraju Manyam | K. Do | B. Broom | V. Baladandayuthapani | G. Manyam | Wenting Wang
[1] W. Wong,et al. The calculation of posterior distributions by data augmentation , 1987 .
[2] K. Kinzler,et al. The multistep nature of cancer. , 1993, Trends in genetics : TIG.
[3] Frank E. Harrell,et al. Regression Modeling Strategies: With Applications to Linear Models, Logistic Regression, and Survival Analysis , 2001 .
[4] D. Slamon,et al. Biological rationale for HER2/neu (c-erbB2) as a target for monoclonal antibody therapy. , 2000, Seminars in oncology.
[5] John D. Storey,et al. Statistical significance for genomewide studies , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[6] Guifang Fu,et al. The Bayesian lasso for genome-wide association studies , 2011, Bioinform..
[7] C. Hoggart,et al. Simultaneous Analysis of All SNPs in Genome-Wide and Re-Sequencing Association Studies , 2008, PLoS genetics.
[8] Wen-Lin Kuo,et al. Amplification of MDS1/EVI1 and EVI1, located in the 3q26.2 amplicon, is associated with favorable patient prognosis in ovarian cancer. , 2007, Cancer research.
[9] Gary D Bader,et al. International network of cancer genome projects , 2010, Nature.
[10] Brad T. Sherman,et al. DAVID: Database for Annotation, Visualization, and Integrated Discovery , 2003, Genome Biology.
[11] Ji Zhu,et al. Regularized Multivariate Regression for Identifying Master Predictors with Application to Integrative Genomics Study of Breast Cancer. , 2008, The annals of applied statistics.
[12] Nello Cristianini,et al. A statistical framework for genomic data fusion , 2004, Bioinform..
[13] Jeffrey S. Morris,et al. Bayesian Analysis of Mass Spectrometry Proteomic Data Using Wavelet‐Based Functional Mixed Models , 2008, Biometrics.
[14] A. Regev,et al. SOX2 Is an Amplified Lineage Survival Oncogene in Lung and Esophageal Squamous Cell Carcinomas , 2009, Nature Genetics.
[15] Matthew Meyerson,et al. Somatic alterations in the human cancer genome. , 2004, Cancer cell.
[16] J. Pounds,et al. Data merging for integrated microarray and proteomic analysis. , 2006, Briefings in functional genomics & proteomics.
[17] D Pinkel,et al. Novel risk stratification of patients with neuroblastoma by genomic signature, which is independent of molecular signature , 2008, Oncogene.
[18] Giuseppe Leone,et al. Analysis of genome-wide methylation and gene expression induced by 5-aza-2′-deoxycytidine identifies BCL2L10 as a frequent methylation target in acute myeloid leukemia , 2010, Leukemia & lymphoma.
[19] Ajay N. Jain,et al. Breast tumor copy number aberration phenotypes and genomic instability , 2006, BMC Cancer.
[20] S. Chib,et al. Bayesian analysis of binary and polychotomous response data , 1993 .
[21] G. Casella,et al. The Bayesian Lasso , 2008 .
[22] S. Gabriel,et al. Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1. , 2010, Cancer cell.
[23] D. Rubin,et al. Inference from Iterative Simulation Using Multiple Sequences , 1992 .
[24] L. Chin,et al. Making sense of cancer genomic data. , 2011, Genes & development.
[25] J. Griffin,et al. BAYESIAN HYPER‐LASSOS WITH NON‐CONVEX PENALIZATION , 2011 .
[26] Y. Benjamini,et al. Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .
[27] Anne-Laure Boulesteix,et al. Survival prediction using gene expression data: A review and comparison , 2009, Comput. Stat. Data Anal..
[28] LiRunze,et al. The Bayesian lasso for genome-wide association studies , 2011 .
[29] M. West. On scale mixtures of normal distributions , 1987 .
[30] Dirk Troost,et al. Overexpression of the Human Major Vault Protein in Gangliogliomas , 2003, Epilepsia.
[31] C. Greenwood,et al. Data Integration in Genetics and Genomics: Methods and Challenges , 2009, Human genomics and proteomics : HGP.
[32] P. Gluckman,et al. Transcriptional activation of signal transducer and activator of transcription (STAT) 3 and STAT5B partially mediate homeobox A1-stimulated oncogenic transformation of the immortalized human mammary epithelial cell. , 2008, Endocrinology.
[33] Kim-Anh Do,et al. Bayesian ensemble methods for survival prediction in gene expression data , 2011, Bioinform..
[34] Li-Xuan Qin,et al. An Integrative Analysis of microRNA and mRNA Expression—A Case Study , 2008, Cancer informatics.
[35] A. Dobrovic,et al. Clinical responses observed with imatinib or sorafenib in melanoma patients expressing mutations in KIT , 2010, British Journal of Cancer.
[36] R. Tibshirani. Regression Shrinkage and Selection via the Lasso , 1996 .
[37] G. Glinsky. Integration of HapMap-Based SNP Pattern Analysis and Gene Expression Profiling Reveals Common SNP Profiles for Cancer Therapy Outcome Predictor Genes* , 2006, Cell cycle.
[38] Kimberly D. Siegmund,et al. DNA Methylation Changes in Atypical Adenomatous Hyperplasia, Adenocarcinoma In Situ, and Lung Adenocarcinoma , 2011, PloS one.
[39] G. Casella,et al. Explaining the Gibbs Sampler , 1992 .
[40] S. Lê,et al. BMC Genomics BioMed Central Methodology article Simultaneous analysis of distinct Omics data sets with integration of biological knowledge: Multiple Factor Analysis approach , 2008 .
[41] Wessel N. van Wieringen,et al. Matching of array CGH and gene expression microarray features for the purpose of integrative genomic analyses , 2011, BMC Bioinformatics.
[42] Walter Berger,et al. Overexpression of the human major vault protein in astrocytic brain tumor cells , 2001, International journal of cancer.
[43] Mihaela Campan,et al. DNA methylation profiles of gastric carcinoma characterized by quantitative DNA methylation analysis , 2008, Laboratory Investigation.
[44] R. Wilson,et al. Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma. , 2010, Cancer cell.
[45] In Ah Kim,et al. Promoter CpG island hypermethylation during breast cancer progression , 2010, Virchows Archiv.
[46] Robert Tibshirani,et al. Statistical Significance for Genome-Wide Experiments , 2003 .
[47] Daniela M Witten,et al. Extensions of Sparse Canonical Correlation Analysis with Applications to Genomic Data , 2009, Statistical applications in genetics and molecular biology.
[48] Wenjiang J. Fu,et al. Asymptotics for lasso-type estimators , 2000 .
[49] J. Griffin,et al. Inference with normal-gamma prior distributions in regression problems , 2010 .
[50] Deepayan Sarkar,et al. Detecting differential gene expression with a semiparametric hierarchical mixture method. , 2004, Biostatistics.
[51] Hsuan-Cheng Huang,et al. Integrative network analysis reveals active microRNAs and their functions in gastric cancer , 2011, BMC Systems Biology.
[52] Yang Dai,et al. Relational database index choices for genome annotation data , 2010, 2010 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW).
[53] Yonghong Xiao,et al. GOLPH3 modulates mTOR signaling and rapamycin sensitivity in cancer , 2009, Nature.
[54] J. Suykens,et al. A kernel-based integration of genome-wide data for clinical decision support , 2009, Genome Medicine.