Timeline

Hugues Aschard

Head of Structure

10 Apr 2024

event

Dpt of Computational Biology seminar “Methods Primer” – Christian Vestergaard (IP, Paris)

10 Apr 2024

event

Dpt of Computational Biology seminar “Methods Primer” – Axel Cournac (IP, Paris)

10 Apr 2024

event

Dpt of Computational Biology seminar “Methods Primer” – Jean-Baptiste Masson (IP Paris)

09 Jan 2024

project

Upturning Eroom’s law: Gathering genetic evidence to elucidate drug target potential

17 Jun 2022

project

Étude des facteurs génétiques et cliniques prédictifs de la variabilité du microbiome et leur rôle dans les maladies inflammatoires de l’intestin (projet MicMat)

01 Jun 2022

publication

Fitting Gaussian mixture models on incomplete data

06 Jan 2022

publication

Portability of 245 polygenic scores when derived from the UK Biobank and applied to 9 ancestry groups from the same cohort.

01 Dec 2021

publication

Mapping the human genetic architecture of COVID-19.

23 Nov 2021

publication

Powerful gene-based testing by integrating long-range chromatin interactions and knockoff genotypes.

01 Nov 2021

publication

Multi-ancestry genome-wide gene-sleep interactions identify novel loci for blood pressure.

01 Aug 2021

publication

Multitrait GWAS to connect disease variants and biological mechanisms.

01 Aug 2021

publication

Genetic meta-analysis of cancer diagnosis following statin use identifies new associations and implicates human leukocyte antigen (HLA) in women.

30 Jun 2021

project

Consortium EpiGenCOV (Epidemiologie Génétique de la COVID19)

01 Jun 2021

publication

Gene-educational attainment interactions in a multi-ancestry genome-wide meta-analysis identify novel blood pressure loci.

01 Jun 2021

publication

Intraocular Pressure, Glaucoma, and Dietary Caffeine Consumption: A Gene-Diet Interaction Study from the UK Biobank.

24 Mar 2021

software

MGMM : Missingness Aware Gaussian Mixture Models

24 Mar 2021

software

RAISS

18 Mar 2021

publication

Estimating the effective sample size in association studies of quantitative traits.

14 Jan 2021

publication

Multi-Ancestry Genome-wide Association Study Accounting for Gene-Psychosocial Factor Interactions Identifies Novel Loci for Blood Pressure Traits.

08 Dec 2020

publication

Ultrarare heterozygous pathogenic variants of genes causing dominant forms of early-onset deafness underlie severe presbycusis.

18 Jun 2020

publication

Deriving stratified effects from joint models investigating gene-environment interactions.

01 May 2020

publication

Mixed-model admixture mapping identifies smoking-dependent loci of lung function in African Americans.

01 Mar 2020

publication

JASS: command line and web interface for the joint analysis of GWAS results.

07 Jan 2020

publication

Fine-mapping of 150 breast cancer risk regions identifies 191 likely target genes

05 Dec 2019

publication

Making the Most of Clumping and Thresholding for Polygenic Scores.

12 Nov 2019

publication

Multi-ancestry sleep-by-SNP interaction analysis in 126,926 individuals reveals lipid loci stratified by sleep duration.

01 Nov 2019

publication

RAISS: robust and accurate imputation from summary statistics.

21 Oct 2019

publication

A comprehensive study of metabolite genetics reveals strong pleiotropy and heterogeneity across time and context.

01 Oct 2019

publication

Genetic Correlations Between Diabetes and Glaucoma: An Analysis of Continuous and Dichotomous Phenotypes.

01 Sep 2019

publication

A comprehensive assessment of demographic, environmental, and host genetic associations with gut microbiome diversity in healthy individuals.

01 Aug 2019

publication

A multi-ancestry genome-wide study incorporating gene-smoking interactions identifies multiple new loci for pulse pressure and mean arterial pressure.

01 Jun 2019

publication

Multiancestry Genome-Wide Association Study of Lipid Levels Incorporating Gene-Alcohol Interactions.

01 May 2019

publication

Efficient Implementation of Penalized Regression for Genetic Risk Prediction.

29 Apr 2019

department

Computational Biology

01 Apr 2019

publication

Multi-ancestry genome-wide gene-smoking interaction study of 387,272 individuals identifies new loci associated with serum lipids.

01 Apr 2019

publication

Adjusting for Principal Components of Molecular Phenotypes Induces Replicating False Positives.

01 Mar 2019

publication

Genetic effects on the commensal microbiota in inflammatory bowel disease patients.

01 Feb 2019

publication

Joint Analysis of Multiple Interaction Parameters in Genetic Association Studies.

22 Jan 2019

publication

Multi-ancestry study of blood lipid levels identifies four loci interacting with physical activity.

18 Dec 2018

publication

Exploring the genetic basis of human population differences in DNA methylation and their causal impact on immune gene regulation.

01 Oct 2018

publication

VarExp: estimating variance explained by genome-wide GxE summary statistics.

15 Aug 2018

publication

Efficient analysis of large-scale genome-wide data with two R packages: bigstatsr and bigsnpr.

27 Jul 2018

publication

Human genetic variants and age are the strongest predictors of humoral immune responses to common pathogens and vaccines.

19 Jul 2018

software

JASS – Joint Analysis of (GWAS) Summary Statistics

01 Apr 2018

publication

A test for gene-environment interaction in the presence of measurement error in the environmental variable.

01 Mar 2018

publication

A Large-Scale Multi-ancestry Genome-wide Study Accounting for Smoking Behavior Identifies Multiple Significant Loci for Blood Pressure.

27 Feb 2018

publication

lme4qtl: linear mixed models with flexible covariance structure for genetic studies of related individuals.

01 Feb 2018

publication

Testosterone Pathway Genetic Polymorphisms in Relation to Primary Open-Angle Glaucoma: An Analysis in Two Large Datasets.

01 Feb 2018

publication

An ancestry-based approach for detecting interactions.

17 Jan 2018

publication

Genome-wide association study in 79,366 European-ancestry individuals informs the genetic architecture of 25-hydroxyvitamin D levels.

16 Jan 2018

publication

Distinctive roles of age, sex, and genetics in shaping transcriptional variation of human immune responses to microbial challenges.

01 Jan 2018

publication

Novel genetic associations for blood pressure identified via gene-alcohol interaction in up to 570K individuals across multiple ancestries.

01 Dec 2017

publication

Covariate selection for association screening in multiphenotype genetic studies.

01 Nov 2017

publication

Genetic correlations between intraocular pressure, blood pressure and primary open-angle glaucoma: a multi-cohort analysis.

01 Oct 2017

publication

Current Challenges and New Opportunities for Gene-Environment Interaction Studies of Complex Diseases.

01 Oct 2017

publication

Update on the State of the Science for Analytical Methods for Gene-Environment Interactions.

01 Oct 2017

publication

Incorporation of Biological Knowledge Into the Study of Gene-Environment Interactions.

01 Jun 2017

publication

Fungal microbiota dysbiosis in IBD.

01 Jun 2017

publication

Evidence for large-scale gene-by-smoking interaction effects on pulmonary function.

01 Mar 2017

publication

Sex-Based Genetic Association Study Identifies CELSR1 as a Possible Chronic Obstructive Pulmonary Disease Risk Locus among Women.

01 Feb 2017

publication

Age at natural menopause genetic risk score in relation to age at natural menopause and primary open-angle glaucoma in a US-based sample.

01 Jan 2017

publication

Screening for interaction effects in gene expression data.

01 Jan 2017

publication

A comprehensive survey of genetic variation in 20,691 subjects from four large cohorts.

15 Dec 2016

publication

Pancreatic Cancer Risk Associated with Prediagnostic Plasma Levels of Leptin and Leptin Receptor Genetic Polymorphisms.

01 Dec 2016

publication

A perspective on interaction effects in genetic association studies.

01 Oct 2016

publication

Genomewide meta-analysis identifies loci associated with IGF-I and IGFBP-3 levels with impact on age-related traits.

29 Sep 2016

team

Statistical Genetics

01 Sep 2016

publication

Genomics, Telomere Length, Epigenetics, and Metabolomics in the Nurses’ Health Studies.

01 Jul 2016

publication

An Empirical Comparison of Joint and Stratified Frameworks for Studying G × E Interactions: Systolic Blood Pressure and Smoking in the CHARGE Gene-Lifestyle Interactions Working Group.

18 May 2016

publication

Power Calculation of Multi-step Combined Principal Components with Applications to Genetic Association Studies

01 Apr 2016

publication

Emergence of Antimicrobial-Resistant Escherichia coli of Animal Origin Spreading in Humans.

04 Feb 2016

publication

Response to Day et al.

01 Feb 2016

publication

Genome-wide association analysis identifies TXNRD2, ATXN2 and FOXC1 as susceptibility loci for primary open-angle glaucoma.

24 Oct 2015

publication

Leveraging local ancestry to detect gene-gene interactions in genome-wide data.

01 Oct 2015

publication

[Genetic and environmental factors of asthma and allergy: Results of the EGEA study].

22 Jul 2015

publication

Fitness cost of antibiotic susceptibility during bacterial infection.

01 May 2015

publication

Finding the missing gene-environment interactions.

05 Feb 2015

publication

Adjusting for heritable covariates can bias effect estimates in genome-wide association studies.

01 Jan 2015

publication

Variation in predictive ability of common genetic variants by established strata: the example of breast cancer and age.

01 May 2014

publication

Maximizing the power of principal-component analysis of correlated phenotypes in genome-wide association studies.

17 Dec 2013

publication

Enhanced in vivo fitness of carbapenem-resistant oprD mutants of Pseudomonas aeruginosa revealed through high-throughput sequencing.

01 Dec 2013

publication

Genetic modifiers of menopausal hormone replacement therapy and breast cancer risk: a genome-wide interaction study.

01 May 2013

publication

A nonparametric test to detect quantitative trait loci where the phenotypic distribution differs by genotypes.

02 Jan 2013

publication

Transcriptional response of mucoid Pseudomonas aeruginosa to human respiratory mucus.

01 Jan 2013

publication

Exploring genome-wide – dietary heme iron intake interactions and the risk of type 2 diabetes.

01 Jan 2013

publication

A comprehensive analysis of in vitro and in vivo genetic fitness of Pseudomonas aeruginosa using high-throughput sequencing of transposon libraries.

01 Oct 2012

publication

Challenges and opportunities in genome-wide environmental interaction (GWEI) studies.

08 Jun 2012

publication

Inclusion of gene-gene and gene-environment interactions unlikely to dramatically improve risk prediction for complex diseases.

01 Jan 2012

publication

Genome-wide joint meta-analysis of SNP and SNP-by-smoking interaction identifies novel loci for pulmonary function.

29 Nov 2011

publication

Combining effects from rare and common genetic variants in an exome-wide association study of sequence data.

01 Jan 2011

publication

Inflated type I error rates when using aggregation methods to analyze rare variants in the 1000 Genomes Project exon sequencing data in unrelated individuals: summary results from Group 7 at Genetic Analysis Workshop 17

01 Jul 2010

publication

17q21 variants modify the association between early respiratory infections and asthma.

01 Jan 2010

publication

Genome-wide meta-analysis of joint tests for genetic and gene-environment interaction effects.

01 Sep 2009

publication

Sex-specific effect of IL9 polymorphisms on lung function and polysensitization.

06 Nov 2008

publication

Effect of 17q21 variants and smoking exposure in early-onset asthma.

01 Jan 2007

publication

A two-step multiple-marker strategy for genome-wide association studies.

01 Jan 2007

publication

A little guide for advanced search:

Dpt of Computational Biology seminar “Methods Primer” – Christian Vestergaard (IP, Paris)

Dpt of Computational Biology seminar “Methods Primer” – Axel Cournac (IP, Paris)

Dpt of Computational Biology seminar “Methods Primer” – Jean-Baptiste Masson (IP Paris)

Upturning Eroom’s law: Gathering genetic evidence to elucidate drug target potential

Étude des facteurs génétiques et cliniques prédictifs de la variabilité du microbiome et leur rôle dans les maladies inflammatoires de l’intestin (projet MicMat)

Fitting Gaussian mixture models on incomplete data

Portability of 245 polygenic scores when derived from the UK Biobank and applied to 9 ancestry groups from the same cohort.

Mapping the human genetic architecture of COVID-19.

Powerful gene-based testing by integrating long-range chromatin interactions and knockoff genotypes.

Multi-ancestry genome-wide gene-sleep interactions identify novel loci for blood pressure.

Multitrait GWAS to connect disease variants and biological mechanisms.

Genetic meta-analysis of cancer diagnosis following statin use identifies new associations and implicates human leukocyte antigen (HLA) in women.

Consortium EpiGenCOV (Epidemiologie Génétique de la COVID19)

Gene-educational attainment interactions in a multi-ancestry genome-wide meta-analysis identify novel blood pressure loci.

Intraocular Pressure, Glaucoma, and Dietary Caffeine Consumption: A Gene-Diet Interaction Study from the UK Biobank.

MGMM : Missingness Aware Gaussian Mixture Models

RAISS

Estimating the effective sample size in association studies of quantitative traits.

Multi-Ancestry Genome-wide Association Study Accounting for Gene-Psychosocial Factor Interactions Identifies Novel Loci for Blood Pressure Traits.

Ultrarare heterozygous pathogenic variants of genes causing dominant forms of early-onset deafness underlie severe presbycusis.

Deriving stratified effects from joint models investigating gene-environment interactions.

Mixed-model admixture mapping identifies smoking-dependent loci of lung function in African Americans.

JASS: command line and web interface for the joint analysis of GWAS results.

Fine-mapping of 150 breast cancer risk regions identifies 191 likely target genes

Making the Most of Clumping and Thresholding for Polygenic Scores.

Multi-ancestry sleep-by-SNP interaction analysis in 126,926 individuals reveals lipid loci stratified by sleep duration.

RAISS: robust and accurate imputation from summary statistics.

A comprehensive study of metabolite genetics reveals strong pleiotropy and heterogeneity across time and context.

Genetic Correlations Between Diabetes and Glaucoma: An Analysis of Continuous and Dichotomous Phenotypes.

A comprehensive assessment of demographic, environmental, and host genetic associations with gut microbiome diversity in healthy individuals.

A multi-ancestry genome-wide study incorporating gene-smoking interactions identifies multiple new loci for pulse pressure and mean arterial pressure.

Multiancestry Genome-Wide Association Study of Lipid Levels Incorporating Gene-Alcohol Interactions.

Efficient Implementation of Penalized Regression for Genetic Risk Prediction.

Computational Biology

Multi-ancestry genome-wide gene-smoking interaction study of 387,272 individuals identifies new loci associated with serum lipids.

Adjusting for Principal Components of Molecular Phenotypes Induces Replicating False Positives.

Genetic effects on the commensal microbiota in inflammatory bowel disease patients.

Joint Analysis of Multiple Interaction Parameters in Genetic Association Studies.

Multi-ancestry study of blood lipid levels identifies four loci interacting with physical activity.

Exploring the genetic basis of human population differences in DNA methylation and their causal impact on immune gene regulation.

VarExp: estimating variance explained by genome-wide GxE summary statistics.

Efficient analysis of large-scale genome-wide data with two R packages: bigstatsr and bigsnpr.

Human genetic variants and age are the strongest predictors of humoral immune responses to common pathogens and vaccines.

JASS – Joint Analysis of (GWAS) Summary Statistics

A test for gene-environment interaction in the presence of measurement error in the environmental variable.

A Large-Scale Multi-ancestry Genome-wide Study Accounting for Smoking Behavior Identifies Multiple Significant Loci for Blood Pressure.

lme4qtl: linear mixed models with flexible covariance structure for genetic studies of related individuals.

Testosterone Pathway Genetic Polymorphisms in Relation to Primary Open-Angle Glaucoma: An Analysis in Two Large Datasets.

An ancestry-based approach for detecting interactions.

Genome-wide association study in 79,366 European-ancestry individuals informs the genetic architecture of 25-hydroxyvitamin D levels.

Distinctive roles of age, sex, and genetics in shaping transcriptional variation of human immune responses to microbial challenges.

Novel genetic associations for blood pressure identified via gene-alcohol interaction in up to 570K individuals across multiple ancestries.

Covariate selection for association screening in multiphenotype genetic studies.

Genetic correlations between intraocular pressure, blood pressure and primary open-angle glaucoma: a multi-cohort analysis.

Current Challenges and New Opportunities for Gene-Environment Interaction Studies of Complex Diseases.

Update on the State of the Science for Analytical Methods for Gene-Environment Interactions.

Incorporation of Biological Knowledge Into the Study of Gene-Environment Interactions.

Fungal microbiota dysbiosis in IBD.

Evidence for large-scale gene-by-smoking interaction effects on pulmonary function.

Sex-Based Genetic Association Study Identifies CELSR1 as a Possible Chronic Obstructive Pulmonary Disease Risk Locus among Women.

Age at natural menopause genetic risk score in relation to age at natural menopause and primary open-angle glaucoma in a US-based sample.

Screening for interaction effects in gene expression data.

A comprehensive survey of genetic variation in 20,691 subjects from four large cohorts.

Pancreatic Cancer Risk Associated with Prediagnostic Plasma Levels of Leptin and Leptin Receptor Genetic Polymorphisms.

A perspective on interaction effects in genetic association studies.

Genomewide meta-analysis identifies loci associated with IGF-I and IGFBP-3 levels with impact on age-related traits.

Statistical Genetics

Genomics, Telomere Length, Epigenetics, and Metabolomics in the Nurses’ Health Studies.

An Empirical Comparison of Joint and Stratified Frameworks for Studying G × E Interactions: Systolic Blood Pressure and Smoking in the CHARGE Gene-Lifestyle Interactions Working Group.

Power Calculation of Multi-step Combined Principal Components with Applications to Genetic Association Studies

Emergence of Antimicrobial-Resistant Escherichia coli of Animal Origin Spreading in Humans.

Response to Day et al.

Genome-wide association analysis identifies TXNRD2, ATXN2 and FOXC1 as susceptibility loci for primary open-angle glaucoma.

Leveraging local ancestry to detect gene-gene interactions in genome-wide data.

[Genetic and environmental factors of asthma and allergy: Results of the EGEA study].

Fitness cost of antibiotic susceptibility during bacterial infection.

Finding the missing gene-environment interactions.

Adjusting for heritable covariates can bias effect estimates in genome-wide association studies.

Variation in predictive ability of common genetic variants by established strata: the example of breast cancer and age.