Ausgabe Sonderheft 9/2018
Genetic Analysis Workshop 20: envisioning the future of statistical genetics by exploring methods for epigenetic and pharmacogenomic data
Inhalt (42 Artikel)
GAW20: methods and strategies for the new frontiers of epigenetics and pharmacogenomics
Nathan L. Tintle, David W. Fardo, Mariza de Andrade, Stella Aslibekyan, Julia N. Bailey, Justo Lorenzo Bermejo, Rita M. Cantor, Saurabh Ghosh, Philip Melton, Xuexia Wang, Jean W. MacCluer, Laura Almasy
Data for GAW20: genome-wide DNA sequence variation and epigenome-wide DNA methylation before and after fenofibrate treatment in a family study of metabolic phenotypes
Stella Aslibekyan, Laura Almasy, Michael A. Province, Devin M. Absher, Donna K. Arnett
Simulation of a medication and methylation effects on triglycerides in the Genetic Analysis Workshop 20
Aldi T. Kraja, Ping An, Petra Lenzini, Shiou J. Lin, Christine Williams, James E. Hicks, E. Warwick Daw, Michael A. Province
Application of Bayesian networks to GAW20 genetic and blood lipid data
Richard A. J. Howey, Heather J. Cordell
Investigating potential causal relationships between SNPs, DNA methylation and HDL
Lai Jiang, Kaiqiong Zhao, Kathleen Klein, Angelo J. Canty, Karim Oualkacha, Celia M. T. Greenwood
Direct and indirect genetic effects on triglycerides through omics and correlated phenotypes
Anne E. Justice, Annie Green Howard, Lindsay Fernández-Rhodes, Misa Graff, Ran Tao, Kari E. North
Disentangling associations between DNA methylation and blood lipids: a Mendelian randomization approach
Sergi Sayols-Baixeras, Hemant K. Tiwari, Stella W. Aslibekyan
Joint screening of ultrahigh dimensional variables for family-based genetic studies
Subha Datta, Yixin Fang, Ji Meng Loh
A deep neural network based regression model for triglyceride concentrations prediction using epigenome-wide DNA methylation profiles
Md. Mohaiminul Islam, Ye Tian, Yan Cheng, Yang Wang, Pingzhao Hu
Identification of epistatic interactions between the human RNA demethylases FTO and ALKBH5 with gene set enrichment analysis informed by differential methylation
Elizabeth R. Piette, Jason H. Moore
Genome-wide analysis in multiple-case families: assessing the relationship between triglyceride and methylation
Angga M. Fuady, Renaud L. M. Tissier, Jeanine J. Houwing-Duistermaat
Evaluating the performance of gene-based tests of genetic association when testing for association between methylation and change in triglyceride levels at GAW20
Jason Vander Woude, Jordan Huisman, Lucas Vander Berg, Jenna Veenstra, Abbey Bos, Anya Kalsbeek, Karissa Koster, Nathan Ryder, Nathan L. Tintle
Integrative methylation score to identify epigenetic modifications associated with lipid changes resulting from fenofibrate treatment in families
Biqi Wang, Anita L. DeStefano, Honghuang Lin
An adaptive gene-based test for methylation data
Chong Wu, Jun Young Park, Weihua Guan, Wei Pan
CpG-set association assessment of lipid concentration changes and DNA methylation
Kaiqiong Zhao, Lai Jiang, Kathleen Klein, Celia M. T. Greenwood, Karim Oualkacha
Modeling methylation data as an additional genetic variance component
Marcio Almeida, Juan Peralta, Jose Garcia, Vincent Diego, Harald Goring, Sarah Williams-Blangero, John Blangero
Evidence of batch effects masking treatment effect in GAW20 methylation data
Angelo J. Canty, Andrew D. Paterson
Network analysis of drug effect on triglyceride-associated DNA methylation
Elise Lim, Hanfei Xu, Peitao Wu, Daniel Posner, Jiayi Wu, Gina M. Peloso, Achilleas N. Pitsillides, Anita L. DeStefano, L. Adrienne Cupples, Ching-Ti Liu
A Bayesian mixed modeling approach for estimating heritability
Haakon E. Nustad, Christian M. Page, Andrew H. Reiner, Manuela Zucknick, Marissa LeBlanc
Assessment of fenofibrate-methylation interactions on triglycerides using longitudinal family data
Jih-Chang Yu, Fang-Chi Hsu, Yen-Feng Chiu
Heritability and genetic associations of triglyceride and HDL-C levels using pedigree-based and empirical kinships
Nicholas B. Blackburn, Arthur Porto, Juan M. Peralta, John Blangero
Evaluation of a phenotype imputation approach using GAW20 simulated data
Yuning Chen, Gina M. Peloso, Josée Dupuis
Genome-wide association study for multiple phenotype analysis
Xuan Deng, Biqi Wang, Virginia Fisher, Gina Peloso, Adrienne Cupples, Ching-Ti Liu
Methods to evaluate rare variants gene-age interaction for triglycerides
Tony Huayang Gao, Jianjun Zhang, Diaz Medina Miguelangel, Xuexia Wang
Genome-wide linkage scan for loci influencing plasma triglyceride levels
Juan M. Peralta, Nicholas B. Blackburn, Arthur Porto, John Blangero, Jac Charlesworth
Reliability of genomic predictions of complex human phenotypes
Arthur Porto, Juan M. Peralta, Nicholas B. Blackburn, John Blangero
Logistic Bayesian LASSO for detecting association combining family and case-control data
Xiaofei Zhou, Meng Wang, Han Zhang, William C. L. Stewart, Shili Lin
Methods for detecting methylation by SNP interaction in GAW20 simulation
E. Warwick Daw, James Hicks, Petra Lenzini, Shiow J. Lin, Judy Wang, Christine Williams, Ping An, Michael A. Province, Aldi T. Kraja
Detection and analysis of CpG sites with multimodal DNA methylation level distributions and their relationships with SNPs
Ke Hu, Jing Li
Integrating epigenetic, genetic, and phenotypic data to uncover gene-region associations with triglycerides in the GOLDN study
Razvan G. Romanescu, Osvaldo Espin-Garcia, Jin Ma, Shelley B. Bull
Gene-methylation epistatic analyses via the W-test identifies enriched signals of neuronal genes in patients undergoing lipid-control treatment
Rui Sun, Haoyi Weng, Ruoting Men, Xiaoxuan Xia, Ka Chun Chong, William K. K. Wu, Benny Chung-Ying Zee, Maggie Haitian Wang
Epigenome wide association study of SNP–CpG interactions on changes in triglyceride levels after pharmaceutical intervention: a GAW20 analysis
Jenna Veenstra, Anya Kalsbeek, Karissa Koster, Nathan Ryder, Abbey Bos, Jordan Huisman, Lucas VanderBerg, Jason VanderWoude, Nathan L. Tintle
Analysis of genotype by methylation interactions through sparsity-inducing regularized regression
Wenda Zhou, Shaw-Hwa Lo
Family-based genome-wide association of inflammation biomarkers and fenofibrate treatment response in the GOLDN study
Sarmistha Das, Pronoy Kanti Mondal, Saurabh Ghosh, Indranil Mukhopadhyay
Transmission-based association mapping of triglyceride levels in a longitudinal framework using quasi-likelihood
Hemant Kulkarni, Indranil Mukhopadhyay, Saurabh Ghosh
Identifying fenofibrate responsive CpG sites
Rita Cantor, Linda Navarro, Calvin Pan
Using penalized regression to predict phenotype from SNP data
Svetlana Cherlin, Richard A. J. Howey, Heather J. Cordell
Homozygosity disequilibrium associated with treatment response and its methylation regulation
Hsin-Chou Yang, Chia-Wei Chen
Coping with family structure in genome-wide association studies: a comparative evaluation
Yayun Hsu, Jonathan Auerbach, Tian Zheng, Shaw-hwa Lo
An efficient analytic approach in genome-wide identification of methylation quantitative trait loci response to fenofibrate treatment
Jiayi Wu Cox, Devanshi Patel, Jaeyoon Chung, Congcong Zhu, Samantha Lent, Virginia Fisher, Achilleas Pitsillides, Lindsay Farrer, Xiaoling Zhang
Analysis of genetic and nongenetic factors influencing triglycerides-lowering drug effects based on paired observations
Zheng Xu, Qing Duan, Juan Cui, Yumou Qiu, Qidong Jia, Cong Wu, Jennifer Clarke
Relating drug response to epigenetic and genetic markers using a region-based kernel score test
Summaira Yasmeen, Patricia Burger, Stefanie Friedrichs, Sergi Papiol, Heike Bickeböller