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List of works by Alexandra Zhernakova

A Functional Genomics Approach to Understand Variation in Cytokine Production in Humans.

scientific article published on November 2016

A genetic study on C5-TRAF1 and progression of joint damage in rheumatoid arthritis

scientific article

A genetic variant in granzyme B is associated with progression of joint destruction in rheumatoid arthritis

scientific article published in March 2013

A genetic variant in the region of MMP-9 is associated with serum levels and progression of joint damage in rheumatoid arthritis

scientific article published on 21 May 2013

A genome-wide association study for celiac disease identifies risk variants in the region harboring IL2 and IL21

scientific article

ATG16L1andIL23RAre Associated With Inflammatory Bowel Diseases but Not With Celiac Disease in The Netherlands

article

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

scientific article published on 22 September 2016

Analysis of 1135 gut metagenomes identifies sex-specific resistome profiles

scientific article published on 29 October 2018

Analysis of HLA and non-HLA alleles can identify individuals at high risk for celiac disease

scientific article

Analysis of a functional BTNL2 polymorphism in type 1 diabetes, rheumatoid arthritis, and systemic lupus erythematosus.

scientific article

Association analysis of copy numbers of FC-gamma receptor genes for rheumatoid arthritis and other immune-mediated phenotypes

scientific article

Association analysis of functional variants of the FcgRIIa and FcgRIIIa genes with type 1 diabetes, celiac disease and rheumatoid arthritis

scientific article published on 25 July 2007

Association analysis of genetic variants in the myosin IXB gene in acute pancreatitis

scientific article

Association of DLG5 variants with gluten-sensitive enteropathy

article published in 2008

Association of Variants inIL2RAWith Progression of Joint Destruction in Rheumatoid Arthritis

scientific article published on 01 July 2013

Association of genetic variants in the IL4 and IL4R genes with the severity of joint damage in rheumatoid arthritis: a study in seven cohorts

scientific article published in December 2013

Association of the TGF-beta receptor genes with abdominal aortic aneurysm.

scientific article

Association of variants of transcription factor 7-like 2 (TCF7L2) with susceptibility to type 2 diabetes in the Dutch Breda cohort

article by J. V. van Vliet-Ostaptchouk et al published 10 October 2006 in Diabetologia

Association study of functional genetic variants of innate immunity related genes in celiac disease

scientific article

Author Correction: Gut microbiome structure and metabolic activity in inflammatory bowel disease

scientific article published on 01 May 2019

Autosomal genetic variation is associated with DNA methylation in regions variably escaping X-chromosome inactivation

scientific article published in Nature Communications

Blood lipids influence DNA methylation in circulating cells

scientific article published on 27 June 2016

CTLA4 +49 A/G and CT60 polymorphisms in Dutch coeliac disease patients

scientific article published in September 2004

CTLA4 is differently associated with autoimmune diseases in the Dutch population

CTLA4/CT60 polymorphism is not relevant in susceptibility to autoimmune inflammatory intestinal disorders

Causal relationships among the gut microbiome, short-chain fatty acids and metabolic diseases

scientific article published on 18 February 2019

Clinical implications of shared genetics and pathogenesis in autoimmune diseases

scientific article

Coeliac disease-associated risk variants in TNFAIP3 and REL implicate altered NF-kappaB signalling

scientific article (publication date: August 2009)

Cohort profile: LifeLines DEEP, a prospective, general population cohort study in the northern Netherlands: study design and baseline characteristics

scientific article

Common and different genetic background for rheumatoid arthritis and coeliac disease

scientific article published on 31 July 2009

Convergent evolution in European and Rroma populations reveals pressure exerted by plague on Toll-like receptors

scientific article published on 03 February 2014

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

scientific article

Detecting shared pathogenesis from the shared genetics of immune-related diseases

scientific article published on January 2009

Detection, imputation, and association analysis of small deletions and null alleles on oligonucleotide arrays

scientific article published on June 2008

Differential association of the PTPN22 coding variant with autoimmune diseases in a Dutch population

scientific article

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

scientific article published on 5 December 2016

Diversity and Ecology of Caudoviricetes Phages with Genome Terminal Repeats in Fecal Metagenomes from Four Dutch Cohorts

scientific article published in 2022

Effective detection of human leukocyte antigen risk alleles in celiac disease using tag single nucleotide polymorphisms

scientific article

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

scientific article published on 21 December 2016

Erratum: Corrigendum: Multiple common variants for celiac disease influencing immune gene expression

article

Evaluation of European coeliac disease risk variants in a north Indian population

scientific article

Evolutionary and functional analysis of celiac risk loci reveals SH2B3 as a protective factor against bacterial infection

scientific article

Fine mapping in the MHC region accounts for 18% additional genetic risk for celiac disease

scientific article published on 20 April 2015

Fine mapping seronegative and seropositive rheumatoid arthritis to shared and distinct HLA alleles by adjusting for the effects of heterogeneity.

scientific article published on 20 March 2014

Functional implications of disease-specific variants in loci jointly associated with coeliac disease and rheumatoid arthritis

scientific article published on 5 November 2015

Genetic Factors for the Severity of ACPA-negative Rheumatoid Arthritis in 2 Cohorts of Early Disease: A Genome-wide Study.

scientific article

Genetic Overlap Between Inflammatory Bowel Disease and Other Diseases

Genetic analysis of innate immunity in Crohn's disease and ulcerative colitis identifies two susceptibility loci harboring CARD9 and IL18RAP.

scientific article published on 24 April 2008

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

scientific article

Genetic risk scores and number of autoantibodies in patients with rheumatoid arthritis

scientific article published on 13 December 2013

Genetic studies on components of the Wnt signalling pathway and the severity of joint destruction in rheumatoid arthritis

scientific article published on 5 October 2012

Genetic variants in the region harbouring IL2/IL21 associated with ulcerative colitis

scientific article published on 6 February 2009

Genetic variants in the region of the C1q genes are associated with rheumatoid arthritis.

scientific article published in July 2013

Genetic variants of RANTES are associated with serum RANTES level and protection for type 1 diabetes

article

Genetic variation of the Fc gamma receptor 3B gene and association with rheumatoid arthritis.

scientific article

Genetic, parental and lifestyle factors influence telomere length

scientific article published on 09 June 2022

Genetics of rheumatoid arthritis contributes to biology and drug discovery

scientific article

Genome-Wide Association Study Identifies Variants Associated With Autoimmune Hepatitis Type 1

article

Genome-wide association study meta-analysis identifies seven new rheumatoid arthritis risk loci

scientific article

Global phylogeography and ancient evolution of the widespread human gut virus crAssphage

scientific article published on 08 July 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

HLA and Non-HLA Genes in Celiac Disease

article

HLA-DRB1*03:01 and HLA-DRB1*04:01 modify the presentation and outcome in autoimmune hepatitis type-1.

scientific article published on 22 January 2015

Haplotype-based analysis of ulcerative colitis risk loci identifies both IL2 and IL21 as susceptibility genes in Han Chinese

scientific article

High-density genetic mapping identifies new susceptibility loci for rheumatoid arthritis

scientific article

Human disease-associated genetic variation impacts large intergenic non-coding RNA expression

scientific article

Human genetics in rheumatoid arthritis guides a high-throughput drug screen of the CD40 signaling pathway

scientific article

Identification of TUB as a novel candidate gene influencing body weight in humans.

scientific article

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

scientific article published on 5 December 2016

Immunochip analysis identifies multiple susceptibility loci for systemic sclerosis

scientific article published on January 2014

Improving Phenotypic Prediction by Combining Genetic and Epigenetic Associations

scientific article

Integration of epidemiologic, pharmacologic, genetic and gut microbiome data in a drug-metabolite atlas

scientific article published on 13 January 2020

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

scientific article published on 8 October 2016

Intestinal barrier gene variants may not explain the increased levels of antigliadin antibodies, suggesting other mechanisms than altered permeability

article

MICA marks additional risk factors for Type 1 diabetes on extended HLA haplotypes: An association and meta-analysis

article

Meta-analysis of genome-wide association studies in celiac disease and rheumatoid arthritis identifies fourteen non-HLA shared loci

scientific journal article

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

scientific article

Metabolic Age Based on the BBMRI-NL 1H-NMR Metabolomics Repository as Biomarker of Age-related Disease

scientific article published on 14 August 2020

Multiple common variants for celiac disease influencing immune gene expression

scientific article

Multiple independent variants in 6q21-22 associated with susceptibility to celiac disease in the Dutch, Finnish and Hungarian populations

scientific article

Myosin IXB variant increases the risk of celiac disease and points toward a primary intestinal barrier defect

scientific article

Newly identified genetic risk variants for celiac disease related to the immune response

scientific article

Novel association in chromosome 4q27 region with rheumatoid arthritis and confirmation of type 1 diabetes point to a general risk locus for autoimmune diseases

scientific article published on 24 October 2007

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

scientific article

Profile of volatile organic compounds in exhaled breath changes as a result of gluten-free diet

article

Proton pump inhibitors affect the gut microbiome

scientific article published on 9 December 2015

Rapidly expanding knowledge on the role of the gut microbiome in health and disease

article

Rare and functional SIAE variants are not associated with autoimmune disease risk in up to 66,924 individuals of European ancestry

scientific article

Rare, low-frequency, and common variants in the protein-coding sequence of biological candidate genes from GWASs contribute to risk of rheumatoid arthritis

scientific article published on 20 December 2012

Six new coeliac disease loci replicated in an Italian population confirm association with coeliac disease.

scientific article

Studying associations between variants inTRAF1-C5andTNFAIP3-OLIG3and the progression of joint destruction in rheumatoid arthritis in multiple cohorts

scientific article published on 14 May 2012

Systematic annotation of celiac disease loci refines pathological pathways and suggests a genetic explanation for increased interferon-gamma levels

scientific article published on 4 September 2014

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

scientific article (publication date: October 2013)

TYK2 protein-coding variants protect against rheumatoid arthritis and autoimmunity, with no evidence of major pleiotropic effects on non-autoimmune complex traits

scientific article

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

scientific article published on 10 September 2015

The MYO9B Gene Is a Strong Risk Factor for Developing Refractory Celiac Disease

article

The canine copper toxicosis gene MURR1 does not cause non-Wilsonian hepatic copper toxicosis

scientific article (publication date: February 2003)

The effect of host genetics on the gut microbiome

scientific article published on 03 October 2016

The genetics of East African populations: a Nilo-Saharan component in the African genetic landscape

scientific article (publication date: 28 May 2015)

The importance of cohort studies in the post-GWAS era

scientific article published on 06 March 2018

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

Understanding human immune function using the resources from the Human Functional Genomics Project

scientific article published on August 2016

Widespread non-additive and interaction effects within HLA loci modulate the risk of autoimmune diseases

scientific article

Yoghurt consumption is associated with changes in the composition of the human gut microbiome and metabolome

scientific article published on 03 February 2022

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