Performance and Robustness of Penalized and Unpenalized Methods for Genetic Prediction of Complex Human Disease

Regularization Paths for Generalized Linear Models via Coordinate Descent

(2015) Jerome Friedman et al.   Journal of Statistical Software

SparSNP: Fast and memory-efficient analysis of all SNPs for phenotype prediction

(2012) Gad Abraham et al.   BMC BIOINFORMATICS

Reprioritizing Genetic Associations in Hit Regions Using LASSO-Based Resample Model Averaging

(2012) William Valdar et al.   GENETIC EPIDEMIOLOGY

Rare and common variants: twenty arguments

(2012) Greg Gibson   NATURE REVIEWS GENETICS

Estimating Missing Heritability for Disease from Genome-wide Association Studies

(2011) Sang Hong Lee et al.   AMERICAN JOURNAL OF HUMAN GENETICS

HAPGEN2: simulation of multiple disease SNPs

(2011) Zhan Su et al.   BIOINFORMATICS

Stability selection for genome-wide association

(2011) David H. Alexander et al.   GENETIC EPIDEMIOLOGY

Dense genotyping identifies and localizes multiple common and rare variant association signals in celiac disease

(2011) Gosia Trynka et al.   NATURE GENETICS

Beyond Missing Heritability: Prediction of Complex Traits

(2011) Robert Makowsky et al.   PLoS Genetics

GCTA: A Tool for Genome-wide Complex Trait Analysis

(2010) Jian Yang et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Identifying main effects and epistatic interactions from large-scale SNP data via adaptive group Lasso

(2010) Can Yang et al.   BMC BIOINFORMATICS

Risk prediction using genome-wide association studies

(2010) Charles Kooperberg et al.   GENETIC EPIDEMIOLOGY

SNP Selection in genome-wide and candidate gene studies via penalized logistic regression

(2010) Kristin L. Ayers et al.   GENETIC EPIDEMIOLOGY

LASSO with cross-validation for genomic selection

(2010) M. GRAZIANO USAI et al.   Genetics Research

Stability selection

(2010) Nicolai Meinshausen et al.   JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY

Integrating common and rare genetic variation in diverse human populations

(2010)   NATURE

A map of human genome variation from population-scale sequencing

(2010) Richard M. Durbin et al.   NATURE

Multiple common variants for celiac disease influencing immune gene expression

(2010) Patrick C A Dubois et al.   NATURE GENETICS

The Genetic Interpretation of Area under the ROC Curve in Genomic Profiling

(2010) Naomi R. Wray et al.   PLoS Genetics

Genome-wide association analysis by lasso penalized logistic regression

(2009) Tong Tong Wu et al.   BIOINFORMATICS

Genome-wide comparisons of variation in linkage disequilibrium

(2009) Y. Y. Teo et al.   GENOME RESEARCH

Harnessing the information contained within genome-wide association studies to improve individual prediction of complex disease risk

(2009) David M. Evans et al.   HUMAN MOLECULAR GENETICS

Predictive ability of direct genomic values for lifetime net merit of Holstein sires using selected subsets of single nucleotide polymorphism markers

(2009) K.A. Weigel et al.   JOURNAL OF DAIRY SCIENCE

Finding the missing heritability of complex diseases

(2009) Teri A. Manolio et al.   NATURE

Pathway Analysis of GWAS Provides New Insights into Genetic Susceptibility to 3 Inflammatory Diseases

(2009) Hariklia Eleftherohorinou et al.   PLoS One

From Disease Association to Risk Assessment: An Optimistic View from Genome-Wide Association Studies on Type 1 Diabetes

(2009) Zhi Wei et al.   PLoS Genetics

Defining the Role of the MHC in Autoimmunity: A Review and Pooled Analysis

(2008) Michelle M. A. Fernando et al.   PLoS Genetics

Simultaneous Analysis of All SNPs in Genome-Wide and Re-Sequencing Association Studies

(2008) Clive J. Hoggart et al.   PLoS Genetics