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List of works by Marc Jan Bonder

A GWAS meta-analysis suggests roles for xenobiotic metabolism and ion channel activity in the biology of stool frequency

scientific article published on 29 July 2016

A linear mixed model approach to study multivariate gene-environment interactions

article

A locus at 7p14.3 predisposes to refractory celiac disease progression from celiac disease

Age-related accrual of methylomic variability is linked to fundamental ageing mechanisms

scientific article published on 22 September 2016

An epigenome-wide association study meta-analysis of educational attainment.

scientific article

Analysis of 1135 gut metagenomes identifies sex-specific resistome profiles

scientific article published on 29 October 2018

Author Correction: Individual variations in cardiovascular-disease-related protein levels are driven by genetics and gut microbiome

scholarly article published in Nature Genetics

Blood lipids influence DNA methylation in circulating cells

scientific article published on 27 June 2016

Breast cancer subtype specific classifiers of response to neoadjuvant chemotherapy do not outperform classifiers trained on all subtypes

scientific article

Calling genotypes from public RNA-sequencing data enables identification of genetic variants that affect gene-expression levels

scientific article

Cardelino: Integrating whole exomes and single-cell transcriptomes to reveal phenotypic impact of somatic variants

Combined single cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

scientific article published on 11 February 2019

Comparing clustering and pre-processing in taxonomy analysis

scientific article published on 8 September 2012

DNA methylation in childhood asthma: an epigenome-wide meta-analysis

scientific article published on 26 February 2018

DNA methylation markers associated with type 2 diabetes, fasting glucose and HbA1c levels: a systematic review and replication in a case-control sample of the Lifelines study.

scientific article published on 21 November 2017

DNA methylation signatures of educational attainment

scientific article published on 23 March 2018

Detection of stable community structures within gut microbiota co-occurrence networks from different human populations

scientific article published on 7 February 2018

Disease variants alter transcription factor levels and methylation of their binding sites

scientific article published on 5 December 2016

Epigenome-wide association study of body mass index, and the adverse outcomes of adiposity

scientific article published on 21 December 2016

Evidence for mitochondrial genetic control of autosomal gene expression

scientific article published on 18 October 2016

Genetic and epigenetic regulation of gene expression in fetal and adult human livers

scientific article

Genetic, parental and lifestyle factors influence telomere length

scientific article published on 09 June 2022

Genetically defined elevated homocysteine levels do not result in widespread changes of DNA methylation in leukocytes

scientific article published on 30 October 2017

Genome-wide analysis identifies 12 loci influencing human reproductive behavior

scientific article

Genotype harmonizer: automatic strand alignment and format conversion for genotype data integration

scientific article published on 11 December 2014

Gut Microbial Associations to Plasma Metabolites Linked to Cardiovascular Phenotypes and Risk

scientific article published on 11 April 2019

Gut microbiota composition and functional changes in inflammatory bowel disease and irritable bowel syndrome

scientific article published on 01 December 2018

Gut microbiota composition associated with stool consistency.

scientific article published on 14 August 2015

Hematopoietic Npc1 mutation shifts gut microbiota composition in Ldlr-/- mice on a high-fat, high-cholesterol diet

scientific article published on 18 October 2019

Identification of context-dependent expression quantitative trait loci in whole blood

scientific article published on 5 December 2016

Improving Phenotypic Prediction by Combining Genetic and Epigenetic Associations

scientific article

Individual variations in cardiovascular-disease-related protein levels are driven by genetics and gut microbiome

Interplay of host genetics and gut microbiota underlying the onset and clinical presentation of inflammatory bowel disease

scientific article published on 8 October 2016

Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity ⬇️

scientific article

Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity

scientific article published on 01 December 2016

Meta-analysis of human genome-microbiome association studies: the MiBioGen consortium initiative.

scientific article

Multi-tissue DNA methylation age predictor in mouse

scientific article

Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity

scientific article

Population-level analysis of gut microbiome variation

scientific article published on 28 April 2016

Population-scale proteome variation in human induced pluripotent stem cells

Population-scale proteome variation in human induced pluripotent stem cells

scientific article published on 10 August 2020

Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation

scientific article published on 04 March 2021

Proton pump inhibitors affect the gut microbiome

scientific article published on 9 December 2015

Screening for genes that accelerate the epigenetic aging clock in humans reveals a role for the H3K36 methyltransferase NSD1

scientific article published on 14 August 2019

Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression

article

Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression

scientific article published on 10 February 2020

Systematic genetic analysis of the MHC region reveals mechanistic underpinnings of HLA type associations with disease

scientific article published on 20 November 2019

TaxMan: a server to trim rRNA reference databases and inspect taxonomic coverage ⬇️

scientific article published on May 22, 2012

The Gut Microbiome Contributes to a Substantial Proportion of the Variation in Blood Lipids

scientific article published on 10 September 2015

The effect of host genetics on the gut microbiome

scientific article published on 03 October 2016

The emerging landscape of dynamic DNA methylation in early childhood

scientific article

The influence of a short-term gluten-free diet on the human gut microbiome

scientific article

The influence of proton pump inhibitors and other commonly used medication on the gut microbiota.

scientific article published on 24 January 2017

The relation between oral Candida load and bacterial microbiome profiles in Dutch older adults

scientific article

The single-cell eQTLGen consortium

scientific article published on 09 March 2020

Tobacco smoking is associated with DNA methylation of diabetes susceptibility genes

scientific article published on 29 January 2016

Trans-ancestry genome-wide association study identifies 12 genetic loci influencing blood pressure and implicates a role for DNA methylation

scientific article

Trans-eQTLs reveal that independent genetic variants associated with a complex phenotype converge on intermediate genes, with a major role for the HLA

scientific article

Unraveling the polygenic architecture of complex traits using blood eQTL meta-analysis

scholarly article published 19 October 2018

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