List of works - Lude Franke

Large-scale genomic analyses link reproductive aging to hypothalamic signaling, breast cancer susceptibility and BRCA1-mediated DNA repair

scientific article published in November 2015

ITPR2 as a susceptibility gene in sporadic amyotrophic lateral sclerosis: a genome-wide association study

scientific journal article

RETRACTED ARTICLE: Detection and replication of epistasis influencing transcription in humans

retracted scholarly article

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

scientific article (publication date: August 2009)

Genome-wide association analysis identifies three new susceptibility loci for childhood body mass index

scientific article published on 24 November 2015

Gene co-expression analysis for functional classification and gene-disease predictions

scientific article published on 10 January 2017

Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations

scientific article

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

scientific article published on 8 October 2016

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

article

New loci for body fat percentage reveal link between adiposity and cardiometabolic disease risk

scientific article published on February 2016

52 Genetic Loci Influencing Myocardial Mass

scientific article

Wnt signaling and Dupuytren's disease

scientific article

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

scientific article

Blood lipids influence DNA methylation in circulating cells

scientific article published on 27 June 2016

Gene-network analysis identifies susceptibility genes related to glycobiology in autism

scientific article

Blood pressure loci identified with a gene-centric array

scientific article

Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption

scientific article

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

scientific article published on 18 February 2019

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

scientific article published on November 2016

Genome-wide analysis identifies 12 loci influencing human reproductive behavior

scientific article

Improved imputation quality of low-frequency and rare variants in European samples using the 'Genome of The Netherlands'.

scientific article published on 4 June 2014

Analysis of SNPs with an effect on gene expression identifies UBE2L3 and BCL3 as potential new risk genes for Crohn's disease

scientific article

From genome to function by studying eQTLs

scientific article published on 4 May 2014

Endothelial TLR4 and the microbiome drive cerebral cavernous malformations.

scientific article

Complex nature of SNP genotype effects on gene expression in primary human leucocytes

scientific article

Expression profiles of long non-coding RNAs located in autoimmune disease-associated regions reveal immune cell-type specificity

scientific article published on 28 October 2014

Improving coeliac disease risk prediction by testing non-HLA variants additional to HLA variants

scientific article published on 23 May 2013

SMIM1 underlies the Vel blood group and influences red blood cell traits

scientific article

Copy-number variation in sporadic amyotrophic lateral sclerosis: a genome-wide screen

scientific article published on 03 March 2008

Novel loci affecting iron homeostasis and their effects in individuals at risk for hemochromatosis

scientific article

Discovery and fine mapping of serum protein loci through transethnic meta-analysis

scientific article

Identification of co-expression gene networks, regulatory genes and pathways for obesity based on adipose tissue RNA Sequencing in a porcine model

scientific article

Inter-individual variability and genetic influences on cytokine responses to bacteria and fungi

scientific article published on 4 July 2016

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

scientific article

Genome-wide association analyses identify variants in developmental genes associated with hypospadias

scientific article published on 10 August 2014

A novel common variant in DCST2 is associated with length in early life and height in adulthood

scientific article published on 3 October 2014

Cell Specific eQTL Analysis without Sorting Cells

scientific article published on 8 May 2015

A large lung gene expression study identifying fibulin-5 as a novel player in tissue repair in COPD.

scientific article published on 2 July 2014

Immunochip SNP array identifies novel genetic variants conferring susceptibility to candidaemia.

scientific article published on 08 September 2014

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

scientific article published on 7 June 2011

Discovery and refinement of genetic loci associated with cardiometabolic risk using dense imputation maps

scientific article published on 26 September 2016

Genome-wide association study in premature ovarian failure patients suggests ADAMTS19 as a possible candidate gene

scientific article published on 9 June 2009

Single-cell RNA sequencing identifies celltype-specific cis-eQTLs and co-expression QTLs.

scientific article published on 2 April 2018

A meta-analysis of Hodgkin lymphoma reveals 19p13.3 TCF3 as a novel susceptibility locus

scientific journal article

Mediation analysis demonstrates that trans-eQTLs are often explained by cis-mediation: a genome-wide analysis among 1,800 South Asians

scientific article

Common variants in the HLA-DQ region confer susceptibility to idiopathic achalasia.

scientific article

Mapping of gene expression reveals CYP27A1 as a susceptibility gene for sporadic ALS.

scientific article

Co-expressed immune and metabolic genes in visceral and subcutaneous adipose tissue from severely obese individuals are associated with plasma HDL and glucose levels: a microarray study

scientific article

eQTL analysis in humans

scientific article published on January 2009

Novel approach identifies SNPs in SLC2A10 and KCNK9 with evidence for parent-of-origin effect on body mass index

scientific article

List of works by Lude Franke

Large-scale genomic analyses link reproductive aging to hypothalamic signaling, breast cancer susceptibility and BRCA1-mediated DNA repair

ITPR2 as a susceptibility gene in sporadic amyotrophic lateral sclerosis: a genome-wide association study

RETRACTED ARTICLE: Detection and replication of epistasis influencing transcription in humans

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

Genome-wide association analysis identifies three new susceptibility loci for childhood body mass index

Gene co-expression analysis for functional classification and gene-disease predictions

Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations

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

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

New loci for body fat percentage reveal link between adiposity and cardiometabolic disease risk

52 Genetic Loci Influencing Myocardial Mass

Wnt signaling and Dupuytren's disease

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

Blood lipids influence DNA methylation in circulating cells

Gene-network analysis identifies susceptibility genes related to glycobiology in autism

Blood pressure loci identified with a gene-centric array

Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption

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

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

Genome-wide analysis identifies 12 loci influencing human reproductive behavior

Improved imputation quality of low-frequency and rare variants in European samples using the 'Genome of The Netherlands'.

Analysis of SNPs with an effect on gene expression identifies UBE2L3 and BCL3 as potential new risk genes for Crohn's disease

From genome to function by studying eQTLs

Endothelial TLR4 and the microbiome drive cerebral cavernous malformations.

Complex nature of SNP genotype effects on gene expression in primary human leucocytes

Expression profiles of long non-coding RNAs located in autoimmune disease-associated regions reveal immune cell-type specificity

Improving coeliac disease risk prediction by testing non-HLA variants additional to HLA variants

SMIM1 underlies the Vel blood group and influences red blood cell traits

Copy-number variation in sporadic amyotrophic lateral sclerosis: a genome-wide screen

Novel loci affecting iron homeostasis and their effects in individuals at risk for hemochromatosis

Discovery and fine mapping of serum protein loci through transethnic meta-analysis

Identification of co-expression gene networks, regulatory genes and pathways for obesity based on adipose tissue RNA Sequencing in a porcine model

Inter-individual variability and genetic influences on cytokine responses to bacteria and fungi

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

Genome-wide association analyses identify variants in developmental genes associated with hypospadias

A novel common variant in DCST2 is associated with length in early life and height in adulthood

Cell Specific eQTL Analysis without Sorting Cells

A large lung gene expression study identifying fibulin-5 as a novel player in tissue repair in COPD.

Immunochip SNP array identifies novel genetic variants conferring susceptibility to candidaemia.

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

Discovery and refinement of genetic loci associated with cardiometabolic risk using dense imputation maps

Genome-wide association study in premature ovarian failure patients suggests ADAMTS19 as a possible candidate gene

Single-cell RNA sequencing identifies celltype-specific cis-eQTLs and co-expression QTLs.

A meta-analysis of Hodgkin lymphoma reveals 19p13.3 TCF3 as a novel susceptibility locus

Mediation analysis demonstrates that trans-eQTLs are often explained by cis-mediation: a genome-wide analysis among 1,800 South Asians

Common variants in the HLA-DQ region confer susceptibility to idiopathic achalasia.

Mapping of gene expression reveals CYP27A1 as a susceptibility gene for sporadic ALS.

Co-expressed immune and metabolic genes in visceral and subcutaneous adipose tissue from severely obese individuals are associated with plasma HDL and glucose levels: a microarray study

eQTL analysis in humans

Novel approach identifies SNPs in SLC2A10 and KCNK9 with evidence for parent-of-origin effect on body mass index