DM-BLD: differential methylation detection using a hierarchical Bayesian model exploiting local dependency
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Xiao Wang | Jianhua Xuan | Jinghua Gu | Leena Hilakivi-Clarke | Robert Clarke | Xiao Wang | J. Xuan | R. Clarke | L. Hilakivi-Clarke | Jinghua Gu
[1] Sandhya Rani,et al. Human Protein Reference Database—2009 update , 2008, Nucleic Acids Res..
[2] Sudha Ananth,et al. Molecular Mechanism of SLC5A8 Inactivation in Breast Cancer , 2013, Molecular and Cellular Biology.
[3] Peter L Molloy,et al. De novo identification of differentially methylated regions in the human genome , 2015, Epigenetics & Chromatin.
[4] Yun Yen,et al. Methylation of homeobox genes is a frequent and early epigenetic event in breast cancer , 2009, Breast Cancer Research.
[5] Ellen R. Laird,et al. Molecular basis for interaction of the protein tyrosine kinase ZAP-70 with the T-cell receptor , 2007, Nature.
[6] Jeffrey T Leek,et al. Bump hunting to identify differentially methylated regions in epigenetic epidemiology studies. , 2012, International journal of epidemiology.
[7] A. Feinberg,et al. The history of cancer epigenetics , 2004, Nature Reviews Cancer.
[8] K. Gunderson,et al. High density DNA methylation array with single CpG site resolution. , 2011, Genomics.
[9] David B. Dunson,et al. Bayesian Data Analysis , 2010 .
[10] Jun Wang,et al. Methylation profiling of 48 candidate genes in tumor and matched normal tissues from breast cancer patients , 2015, Breast Cancer Research and Treatment.
[11] Wei Pan,et al. Network‐based genomic discovery: application and comparison of Markov random‐field models , 2010, Journal of the Royal Statistical Society. Series C, Applied statistics.
[12] M. Esteller,et al. DNA methylation and cancer. , 2010, Advances in genetics.
[13] Y. Benjamini,et al. Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .
[14] V. Ganapathy,et al. The plasma membrane transporter SLC5A8 suppresses tumour progression through depletion of survivin without involving its transport function. , 2013, The Biochemical journal.
[15] Steven J. M. Jones,et al. Comprehensive molecular portraits of human breast tumors , 2012, Nature.
[16] J. Atchison,et al. Logistic-normal distributions:Some properties and uses , 1980 .
[17] D. Clayton,et al. Empirical Bayes estimates of age-standardized relative risks for use in disease mapping. , 1987, Biometrics.
[18] A. Feinberg. Phenotypic plasticity and the epigenetics of human disease , 2007, Nature.
[19] M. Esteller,et al. Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome , 2011, Epigenetics.
[20] Steven J. M. Jones,et al. Comprehensive molecular portraits of human breast tumours , 2013 .
[21] A. Meissner. Epigenetic modifications in pluripotent and differentiated cells , 2010, Nature Biotechnology.
[22] Wei Zheng,et al. CMTM3, located at the critical tumor suppressor locus 16q22.1, is silenced by CpG methylation in carcinomas and inhibits tumor cell growth through inducing apoptosis. , 2009, Cancer research.
[23] S Ramchandani,et al. DNA methylation is a reversible biological signal. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[24] Duncan Lee,et al. A comparison of conditional autoregressive models used in Bayesian disease mapping. , 2011, Spatial and spatio-temporal epidemiology.
[25] D. Berry,et al. Statistical models in epidemiology, the environment, and clinical trials , 2000 .
[26] J. Besag. On the Statistical Analysis of Dirty Pictures , 1986 .
[27] Peter A. Jones,et al. A decade of exploring the cancer epigenome — biological and translational implications , 2011, Nature Reviews Cancer.
[28] A. Bird. DNA methylation patterns and epigenetic memory. , 2002, Genes & development.
[29] F. H. Garrison. The history of cancer. , 2012, Bulletin of the New York Academy of Medicine.
[30] Michael Rose,et al. OASIS/CREB3L1 is epigenetically silenced in human bladder cancer facilitating tumor cell spreading and migration in vitro , 2014, Epigenetics.
[31] Stephan Beck,et al. Probe Lasso: A novel method to rope in differentially methylated regions with 450K DNA methylation data , 2015, Methods.
[32] Dan Wang,et al. IMA: an R package for high-throughput analysis of Illumina's 450K Infinium methylation data , 2012, Bioinform..
[33] David Euhus,et al. Identification of 5 novel genes methylated in breast and other epithelial cancers , 2010, Molecular Cancer.
[34] Norman E. Breslow,et al. Estimation of Disease Rates in Small Areas: A new Mixed Model for Spatial Dependence , 2000 .
[35] Wendy Kennedy,et al. Negative regulation of G1/S transition by the candidate bladder tumour suppressor gene DBCCR1 , 2001, Oncogene.
[36] Cory Y. McLean,et al. GREAT improves functional interpretation of cis-regulatory regions , 2010, Nature Biotechnology.
[37] Brent S. Pedersen,et al. Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values , 2012, Bioinform..