Finding the missing heritability of complex diseases, Nature, vol.461, pp.747-753, 2009. ,
, , 2008.
, Genome-wide association studies: potential next steps on a genetic journey, Human Molecular Genetics, vol.17, pp.156-165
The mystery of missing heritability: Genetic interactions create phantom heritability, Proceedings of the National Academy of Sciences of the United States of America, vol.109, pp.1193-1201, 2012. ,
Meta-analysis of genome-wide association data and large-scale replication identifies additional susceptibility loci for type 2 diabetes, Nature Genetics, vol.40, pp.638-645, 2008. ,
Many sequence variants affecting diversity of adult human height, Nature Genetics, vol.40, pp.609-615, 2008. ,
Epistasis in sporadic alzheimer's disease, Neurobiology of Aging, vol.30, pp.1333-1349, 2009. ,
XV.-the correlation between relatives on the supposition of mendelian inheritance, Transactions of the Royal Society of Edinburgh, vol.52, pp.399-433, 1919. ,
Detecting genegene interactions that underlie human diseases, Nature Reviews Genetics, vol.10, pp.392-404, 2009. ,
A survey about methods dedicated to epistasis detection, Frontiers in Genetics, vol.6, 2015. ,
URL : https://hal.archives-ouvertes.fr/hal-01205577
Traversing the conceptual divide between biological and statistical epistasis: systems biology and a more modern synthesis, BioEssays, vol.27, pp.637-646, 2005. ,
AGGrEGATOr: A Gene-based GEne-Gene interActTiOn test for case-control association studies, Statistical Applications in Genetics and Molecular Biology, vol.15, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-01305418
To bonferroni or not to bonferroni: when and how are the questions, Bulletin of the Ecological Society of America, vol.81, pp.246-248, 2000. ,
Controlling the false discovery rate: A practical and powerful approach to multiple testing, Journal of the Royal Statistical Society. Series B (Methodological), vol.57, pp.289-300, 1995. ,
A farewell to bonferroni: the problems of low statistical power and publication bias, Behavioral Ecology, vol.15, pp.1044-1045, 2004. ,
Performance of epistasis detection methods in semi-simulated GWAS, BMC Bioinformatics, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01832976
BOOST: A fast approach to detecting gene-gene interactions in genome-wide case-control studies, American Journal of Human Genetics, vol.87, pp.325-340, 2010. ,
GBOOST: a GPU-based tool for detecting genegene interactions in genomewide case control studies, Bioinformatics, vol.27, pp.1309-1310, 2011. ,
The xyz algorithm for fast interaction search in high-dimensional data, Journal of Machine Learning Research, vol.19, pp.1-42, 2018. ,
Rationale and design of the LURIC study-a resource for functional genomics, pharmacogenomics and long-term prognosis of cardiovascular disease, Pharmacogenomics, vol.2, pp.1-73, 2001. ,
Least angle regression, The Annals of Statistics, vol.32, pp.407-499, 2004. ,
A lasso for hierarchical interactions, The Annals of Statistics, vol.41, pp.1111-1141, 2013. ,
Estimating causal effects of treatments in randomized and nonrandomized studies, Journal of Educational Psychology, vol.66, pp.688-701, 1974. ,
A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase, American journal of human genetics, vol.78, 2006. ,
Estimating Individualized Treatment Rules Using Outcome Weighted Learning, Journal of the American Statistical Association, vol.107, pp.1106-1118, 2012. ,
A Simple Method for Estimating Interactions Between a Treatment and a Large Number of Covariates, Journal of the American Statistical Association, vol.109, pp.1517-1532, 2014. ,
Stratification and weighting via the propensity score in estimation of causal treatment effects: A comparative study, Statistics in Medicine, vol.23, pp.2937-2960, 2004. ,
Moving towards best practice when using inverse probability of treatment weighting (IPTW) using the propensity score to estimate causal treatment effects in observational studies, Statistics in Medicine, vol.34, pp.3661-3679, 2015. ,
PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses, The American Journal of Human Genetics, vol.81, pp.559-575, 2007. ,
Intersnp: genome-wide interaction analysis guided by a priori information, Bioinformatics, vol.25, pp.3275-3281, 2009. ,
Further development of the case-only design for assessing gene-environment interaction: evaluation of and adjustment for bias, International Journal of Epidemiology, vol.33, pp.1014-1024, 2004. ,
Non-hierarchical logistic models and case-only designs for assessing susceptibility in population-based case-control studies, Statistics in Medicine, vol.13, pp.153-162, 1994. ,
Case-only design to measure gene-gene interaction, Epidemiology, vol.10, pp.167-70, 1999. ,
Haplotype inference using a bayesian hidden markov model, Genetic Epidemiology, vol.31, pp.937-948, 2007. ,
A hidden markov technique for haplotype reconstruction, Lecture Notes in Computer Science In Lecture Notes in Computer Science, 2005. ,
The structure of haplotype blocks in the human genome, Science, vol.296, pp.2225-2229, 2002. ,
Controlling the false discovery rate via knockoffs, The Annals of Statistics, vol.43, pp.2055-2085, 2015. ,
Gene hunting with hidden markov model knockoffs, Biometrika, 2018. ,
Constructing inverse probability weights for marginal structural models, American Journal of Epidemiology, vol.168, pp.656-664, 2008. ,
Weight trimming and propensity score weighting, PLoS ONE, vol.6, 2011. ,
A tutorial on hidden markov models and selected applications in speech recognition, Proceedings of the IEEE, vol.77, pp.257-286, 1989. ,
Regularization and variable selection via the elastic net, Journal of the Royal Statistical Society: Series B (Statistical Methodology), vol.67, pp.301-320, 2005. ,
TIGRESS: Trustful Inference of Gene REgulation using Stability Selection, BMC Systems Biology, vol.6, 2012. ,
URL : https://hal.archives-ouvertes.fr/inserm-00797206
Regularization paths for generalized linear models via coordinate descent, Journal of Statistical Software, vol.33, 2010. ,
Common vs. rare allele hypotheses for complex diseases, Current Opinion in Genetics & Development, vol.19, pp.212-219, 2009. ,
HAPGEN2: simulation of multiple disease SNPs, Bioinformatics, vol.27, pp.2304-2305, 2011. ,
A global reference for human genetic variation, Nature, vol.526, pp.68-74, 2015. ,
, , 2007.
, Genome-wide association study of 14, 000 cases of seven common diseases and 3, 000 shared controls, Nature, vol.447, pp.661-678
Precrec: fast and accurate precision-recall and ROC curve calculations in r, Bioinformatics, vol.33, pp.145-147, 2016. ,
The relationship between Precision-Recall and ROC curves, Proceedings of the 23rd international conference on Machine learning-ICML '06 pp, pp.233-240, 2006. ,
DOI : 10.1145/1143844.1143874
URL : https://minds.wisconsin.edu/bitstream/1793/60482/1/TR1551.pdf
WHInter: A working set algorithm for high-dimensional sparse second order interaction models, Proceedings of the 35th International Conference on Machine Learning, pp.3632-3641, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01711018
Celer: a Fast Solver for the Lasso with Dual Extrapolation, ICML 2018-35th International Conference on Machine Learning, vol.80, pp.3321-3330, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01833398
An expanded view of complex traits: From polygenic to omnigenic, Cell, vol.169, pp.1177-1186, 2017. ,
DOI : 10.1016/j.cell.2017.05.038
URL : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5536862
Genome-wide genetic data on 500, 2017. ,
Approximate residual balancing: debiased inference of average treatment effects in high dimensions, Journal of the Royal Statistical Society: Series B (Statistical Methodology), 2018. ,
Maximum likelihood from incomplete data via the em algorithm, Journal of the Royal Statistical Society. Series B (Methodological), vol.39, pp.1-38, 1977. ,
DOI : 10.1111/j.2517-6161.1977.tb01600.x