C-reactive protein upregulates the whole blood expression of CD59 - an integrative analysis

Integration of summary data from GWAS and eQTL studies predicts complex trait gene targets

(2016) Zhihong Zhu et al.   NATURE GENETICS

Integrative approaches for large-scale transcriptome-wide association studies

(2016) Alexander Gusev et al.   NATURE GENETICS

g:Profiler—a web server for functional interpretation of gene lists (2016 update)

(2016) Jüri Reimand et al.   NUCLEIC ACIDS RESEARCH

RNA-seq analysis for detecting quantitative trait-associated genes

(2016) Minseok Seo et al.   Scientific Reports

Investigating the Causal Relationship of C-Reactive Protein with 32 Complex Somatic and Psychiatric Outcomes: A Large-Scale Cross-Consortium Mendelian Randomization Study

(2016) Bram. P. Prins et al.   PLOS MEDICINE

Fast and efficient QTL mapper for thousands of molecular phenotypes

(2015) Halit Ongen et al.   BIOINFORMATICS

Mendelian randomization with invalid instruments: effect estimation and bias detection through Egger regression

(2015) J. Bowden et al.   INTERNATIONAL JOURNAL OF EPIDEMIOLOGY

Methods of integrating data to uncover genotype–phenotype interactions

(2015) Marylyn D. Ritchie et al.   NATURE REVIEWS GENETICS

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Greenlandic Inuit show genetic signatures of diet and climate adaptation

(2015) M. Fumagalli et al.   SCIENCE

The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans

(2015) et al.   SCIENCE

Second-generation PLINK: rising to the challenge of larger and richer datasets

(2015) Christopher C Chang et al.   GigaScience

Genetic loci associated with circulating phospholipid trans fatty acids: a meta-analysis of genome-wide association studies from the CHARGE Consortium

(2014) Dariush Mozaffarian et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

Interferon-Stimulated Genes: A Complex Web of Host Defenses

(2014) William M. Schneider et al.   Annual Review of Immunology

Fast and accurate imputation of summary statistics enhances evidence of functional enrichment

(2014) Bogdan Pasaniuc et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Cohort Profile: Estonian Biobank of the Estonian Genome Center, University of Tartu

(2014) Liis Leitsalu et al.   INTERNATIONAL JOURNAL OF EPIDEMIOLOGY

Integrative Genomics Reveals Novel Molecular Pathways and Gene Networks for Coronary Artery Disease

(2014) Ville-Petteri Mäkinen et al.   PLoS Genetics

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

(2014) Charity W Law et al.   GENOME BIOLOGY

Mendelian Randomization Analysis With Multiple Genetic Variants Using Summarized Data

(2013) Stephen Burgess et al.   GENETIC EPIDEMIOLOGY

Modeling Causality for Pairs of Phenotypes in System Genetics

(2013) E. C. Neto et al.   GENETICS

Calculating statistical power in Mendelian randomization studies

(2013) Marie-Jo A Brion et al.   INTERNATIONAL JOURNAL OF EPIDEMIOLOGY

Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in rheumatoid arthritis

(2013) Yun Liu et al.   NATURE BIOTECHNOLOGY

Common variants associated with plasma triglycerides and risk for coronary artery disease

(2013) Ron Do et al.   NATURE GENETICS

Systematic identification of trans eQTLs as putative drivers of known disease associations

(2013) Harm-Jan Westra et al.   NATURE GENETICS

Nephrocalcinosis (Enamel Renal Syndrome) Caused by Autosomal RecessiveFAM20AMutations

(2013) Graciana Jaureguiberry et al.   NEPHRON PHYSIOLOGY

The NHGRI GWAS Catalog, a curated resource of SNP-trait associations

(2013) Danielle Welter et al.   NUCLEIC ACIDS RESEARCH

Agglutination of Intravenously Administered Phosphatidylcholine-Containing Lipid Emulsions With Serum C-reactive Protein

(2013) Pierrot Tugirimana et al.   NUTRITION IN CLINICAL PRACTICE

Reconstructing targetable pathways in lung cancer by integrating diverse omics data

(2013) O. Alejandro Balbin et al.   Nature Communications

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

CD59 deficiency is associated with chronic hemolysis and childhood relapsing immune-mediated polyneuropathy

(2012) Y. Nevo et al.   BLOOD

Conditional and joint multiple-SNP analysis of GWAS summary statistics identifies additional variants influencing complex traits

(2012) Jian Yang et al.   NATURE GENETICS

INTERFEROME v2.0: an updated database of annotated interferon-regulated genes

(2012) Irina Rusinova et al.   NUCLEIC ACIDS RESEARCH

Whole-Exome Sequencing Identifies FAM20A Mutations as a Cause of Amelogenesis Imperfecta and Gingival Hyperplasia Syndrome

(2011) James O'Sullivan et al.   AMERICAN JOURNAL OF HUMAN GENETICS

MixupMapper: correcting sample mix-ups in genome-wide datasets increases power to detect small genetic effects

(2011) Harm-Jan Westra et al.   BIOINFORMATICS

Meta-Analysis of Genome-Wide Association Studies in >80 000 Subjects Identifies Multiple Loci for C-Reactive Protein Levels

(2011) Abbas Dehghan et al.   CIRCULATION

Genetic Loci Associated with Plasma Phospholipid n-3 Fatty Acids: A Meta-Analysis of Genome-Wide Association Studies from the CHARGE Consortium

(2011) Rozenn N. Lemaitre et al.   PLoS Genetics

Causal graphical models in systems genetics: A unified framework for joint inference of causal network and genetic architecture for correlated phenotypes

(2010) Elias Chaibub Neto et al.   Annals of Applied Statistics

C-reactive protein levels and body mass index: elucidating direction of causation through reciprocal Mendelian randomization

(2010) N J Timpson et al.   INTERNATIONAL JOURNAL OF OBESITY

The study of eQTL variations by RNA-seq: from SNPs to phenotypes

(2010) Jacek Majewski et al.   TRENDS IN GENETICS

A Bayesian Framework to Account for Complex Non-Genetic Factors in Gene Expression Levels Greatly Increases Power in eQTL Studies

(2010) Oliver Stegle et al.   PLoS Computational Biology

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Disentangling molecular relationships with a causal inference test

(2009) Joshua Millstein et al.   BMC GENETICS

Complement Regulator CD59 Protects Against Atherosclerosis by Restricting the Formation of Complement Membrane Attack Complex

(2009) Gongxiong Wu et al.   CIRCULATION RESEARCH

Cause and express

(2009) Leonid Kruglyak et al.   NATURE BIOTECHNOLOGY

Using genetic markers to orient the edges in quantitative trait networks: The NEO software

(2008) Jason E Aten et al.   BMC Systems Biology

Gene Network Inference via Structural Equation Modeling in Genetical Genomics Experiments

(2008) B. Liu et al.   GENETICS

Inferring Causal Phenotype Networks From Segregating Populations

(2008) Elias Chaibub Neto et al.   GENETICS

Genes mirror geography within Europe

(2008) John Novembre et al.   NATURE

Loci influencing lipid levels and coronary heart disease risk in 16 European population cohorts

(2008) Yurii S Aulchenko et al.   NATURE GENETICS