List of works - Dan L. Nicolae

(Too) great expectations: the challenges in replicating asthma disease genes

scientific article published on June 2009

116 Genome-Wide Association Studies of Asthma Indicate Opposite Immunopathogenesis Direction From Autoimmune Diseases.

scientific article published on 17 February 2012

A Genome Scan in 260 Inflammatory Bowel Disease-Affected Relative Pairs

scientific article published on 01 January 2004

A Genome Scan in 260 Inflammatory Bowel Disease-Affected Relative Pairs

scientific article published on 01 September 2004

A Nondegenerate Code of Deleterious Variants in Mendelian Loci Contributes to Complex Disease Risk

scientific article (publication date: September 2013)

A common cortactin gene variation confers differential susceptibility to severe asthma

scientific article published on December 2008

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

scientific article published on 11 October 2016

A frameshift mutation in NOD2 associated with susceptibility to Crohn's disease

scientific article

A functional data analysis approach for genetic association studies ⬇️

article

A gene-based association method for mapping traits using reference transcriptome data

scientific article

A genome-wide association study identifies IL23R as an inflammatory bowel disease gene

scientific article

A genome-wide association study identifies a novel major locus for glycemic control in type 1 diabetes, as measured by both A1C and glucose

scientific article

A genome-wide association study of early-onset breast cancer identifies PFKM as a novel breast cancer gene and supports a common genetic spectrum for breast cancer at any age.

scientific article

A genome-wide scan for preeclampsia in the Netherlands

A genome-wide scan reveals a maternal susceptibility locus for pre-eclampsia on chromosome 2p13.

scientific article published in September 1999

A genome-wide survey of CD4(+) lymphocyte regulatory genetic variants identifies novel asthma genes

scientific article

A meta-analysis of genome-wide association studies for serum total IgE in diverse study populations

scientific article published on 10 November 2012

A signature of evolutionary constraint on a subset of ectopically expressed olfactory receptor genes

scientific article published on 22 December 2008

A study of CNVs as trait-associated polymorphisms and as expression quantitative trait loci

scientific article

A theory of statistical models for Monte Carlo integration

article

A unified set-based test with adaptive filtering for gene-environment interaction analyses

scientific article published on 23 October 2015

Accurate imputation of rare and common variants in a founder population from a small number of sequenced individuals

scientific article published on 28 March 2012

Allele-Specific Targeting of microRNAs to HLA-G and Risk of Asthma

article

Allele-specific targeting of microRNAs to HLA-G and risk of asthma

scientific article

An admixture mapping meta-analysis implicates genetic variation at 18q21 with asthma susceptibility in Latinos

scientific article published on 07 September 2018

An evolutionary framework for association testing in resequencing studies.

scientific article

An exponential combination procedure for set-based association tests in sequencing studies

scientific article published on 15 November 2012

Association Tests for Rare Variants

scientific article published on 21 April 2016

Association studies for asthma and atopic diseases: a comprehensive review of the literature

scientific article

Association studies for untyped markers with TUNA

scientific article

Characterizing the expression of the human olfactory receptor gene family using a novel DNA microarray

scientific article

Common variants at five new loci associated with early-onset inflammatory bowel disease

scientific article

Coverage and characteristics of the Affymetrix GeneChip Human Mapping 100K SNP set.

scientific article published on 5 May 2006

Crohn's disease-associated NOD2 variants share a signaling defect in response to lipopolysaccharide and peptidoglycan

scientific article published on January 2003

Dominant-negative TLR5 polymorphism reduces adaptive immune response to flagellin and negatively associates with Crohn's disease

article

Effect of variation in CHI3L1 on serum YKL-40 level, risk of asthma, and lung function

scientific article

Effects of Sequence and Structure on the Hypermutability of Immunoglobulin Genes

article

Effects of dog ownership and genotype on immune development and atopy in infancy

scientific article published in February 2004

Estimating Variance Components in Functional Linear Models With Applications to Genetic Heritability

article

Ethnic differences and functional analysis of MET mutations in lung cancer

scientific article published on September 2009

Ethnic-specific associations of rare and low-frequency DNA sequence variants with asthma

scientific article

Ethnicity-specific pharmacogenetics: the case of warfarin in African Americans

scientific article

Evidence for gene-environment interactions in a linkage study of asthma and smoking exposure

scientific article published on April 2003

Exome sequencing reveals a novel mutation for autosomal recessive non-syndromic mental retardation in the TECR gene on chromosome 19p13

scientific article

Finding disease variants in Mendelian disorders by using sequence data: methods and applications

scientific article

Fine mapping and positional candidate studies identify HLA-G as an asthma susceptibility gene on chromosome 6p21

scientific article

Further replication studies of the EVE Consortium meta-analysis identifies 2 asthma risk loci in European Americans

scientific article published on 4 October 2012

GEL: a novel genotype calling algorithm using empirical likelihood

scientific article published on 29 June 2006

GWAS to Sequencing: Divergence in Study Design and Analysis

scientific article

Gene Expression Profiling in Blood Provides Reproducible Molecular Insights into Asthma Control

scientific article published on 5 August 2016

Gene, region and pathway level analyses in whole-genome studies

scientific article

Gene-environment interaction effects on the development of immune responses in the 1st year of life

scientific article

Genetic associations with viral respiratory illnesses and asthma control in children.

scientific article

Genetic variants associated with idiopathic pulmonary fibrosis susceptibility and mortality: a genome-wide association study

scientific article

Genetic variation in immunoregulatory pathways and atopic phenotypes in infancy

scientific article published in March 2004

Genome-Wide Methylation Study Identifies an IL-13-induced Epigenetic Signature in Asthmatic Airways

scientific article published on 16 October 2015

Genome-wide ancestry association testing identifies a common European variant on 6q14.1 as a risk factor for asthma in African American subjects

scientific article

Genome-wide association and meta-analysis in populations from Starr County, Texas, and Mexico City identify type 2 diabetes susceptibility loci and enrichment for expression quantitative trait loci in top signals

scientific journal article

Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease

scientific article

Genome-wide association studies of asthma indicate opposite immunopathogenesis direction from autoimmune diseases

scientific article published on 12 June 2012

Genome-wide association study and admixture mapping reveal new loci associated with total IgE levels in Latinos

scientific article published on 6 December 2014

Genome-wide association study identifies new susceptibility loci for Crohn disease and implicates autophagy in disease pathogenesis

scientific article

Genome-wide association study of lung function phenotypes in a founder population

scientific article

Genome-wide association study of plasma lipoprotein(a) levels identifies multiple genes on chromosome 6q

scientific article

Genome-wide association study of recalcitrant atopic dermatitis in Korean children

scientific article

Genome-wide interaction studies reveal sex-specific asthma risk alleles

scientific article

Genome-wide meta-analysis for severe diabetic retinopathy

scientific article

Host genetic variation in mucosal immunity pathways influences the upper airway microbiome.

scientific article published on February 2017

Identification of novel susceptibility loci for inflammatory bowel disease on chromosomes 1p, 3q, and 4q: Evidence for epistasis between 1p and IBD1 ⬇️

scientific article published on June 23, 1998

Imputing Gene Expression in Uncollected Tissues Within and Beyond GTEx

scientific article published on 29 March 2016

Increased protein-coding mutations in the mitochondrial genome of African American women with preeclampsia

scientific article

Integrated genome-wide association, coexpression network, and expression single nucleotide polymorphism analysis identifies novel pathway in allergic rhinitis

scientific article

Integration of mouse and human genome-wide association data identifies KCNIP4 as an asthma gene

scientific article (publication date: 2013)

MDR1 Ala893 polymorphism is associated with inflammatory bowel disease

scientific article

MERLIN...and the Geneticist's Stone? ⬇️

scientific article published on January 1, 2002

Marbled inflation from population structure in gene-based association studies with rare variants

scientific article published on 6 March 2013

Maternal asthma and microRNA regulation of soluble HLA-G in the airway

scientific article published on 25 March 2013

Measuring the relative information in allele-sharing linkage studies

scientific article published on June 2004

Meta-analysis of genome-wide association studies of asthma in ethnically diverse North American populations

scientific article

Microarray analysis of changes in bone cell gene expression early after cadmium gavage in mice

article

Multiancestry association study identifies new asthma risk loci that colocalize with immune-cell enhancer marks.

scientific article published on 22 December 2017

Noninvasive analysis of the sputum transcriptome discriminates clinical phenotypes of asthma

scientific article published on May 2015

On a randomization procedure.

scientific article published in November 2000

On sharing quantitative trait GWAS results in an era of multiple-omics data and the limits of genomic privacy

scientific article

PRIMAL: Fast and accurate pedigree-based imputation from sequence data in a founder population

scientific article

Patient self-report of prior laser treatment reliably indicates presence of severe diabetic retinopathy

scientific article published on 03 December 2008

Phenotype-stratified genetic linkage study demonstrates that IBD2 is an extensive ulcerative colitis locus

scientific article

Prenatal tobacco smoke exposure is associated with childhood DNA CpG methylation

scientific article

Quantifying the amount of missing information in genetic association studies

scientific article published in December 2006

Rapid divergence in expression between duplicate genes inferred from microarray data

scientific article

Recombination rates in admixed individuals identified by ancestry-based inference

scientific article published on 20 July 2011

Regulation of IL-8 and IL-1beta expression in Crohn's disease associated NOD2/CARD15 mutations

scientific article

Replication analysis for severe diabetic retinopathy

scientific article

Resequencing candidate genes implicates rare variants in asthma susceptibility

scientific article published on February 2012

Restricted parameter space models for testing gene-gene interaction

scientific article published on July 2009

Rhinovirus wheezing illness and genetic risk of childhood-onset asthma

scientific article published on 27 March 2013

SCAN: SNP and copy number annotation

scientific article

Sequence variations at the human leukocyte antigen-linked olfactory receptor cluster do not influence female preferences for male odors

scientific article published on January 2010

Shades of gray: a comparison of linkage disequilibrium between Hutterites and Europeans

scientific article

Smoking and inflammatory bowel disease

scientific article published on 01 May 2007

Somatic hypermutation: processivity of the cytosine deaminase AID and error-free repair of the resulting uracils

scientific article published on 29 October 2009

Spoiling the whole bunch: quality control aimed at preserving the integrity of high-throughput genotyping

scientific article

Stress and Bronchodilator Response in Children with Asthma

scientific article published in July 2015

Survey of the Heritability and Sparse Architecture of Gene Expression Traits across Human Tissues

scientific article

Testing untyped alleles (TUNA)-applications to genome-wide association studies

scientific article published in December 2006

The missing association: sequencing-based discovery of novel SNPs in VKORC1 and CYP2C9 that affect warfarin dose in African Americans

scientific article published on 26 January 2011

The pattern of somatic hypermutation of Ig genes is altered when p53 is inactivated

scientific article

The very 5' end and the constant region of Ig genes are spared from somatic mutation because AID does not access these regions

scientific article

Trait-associated SNPs are more likely to be eQTLs: annotation to enhance discovery from GWAS

scientific article

Ulcerative colitis and ex-smoking: The later the diagnosis, the greater the burden

scholarly article by Jeffrey A. Tuvlin et al published April 2003 in Gastroenterology

You've Gotta Be Lucky: Coverage and the Elusive Gene-Gene Interaction ⬇️

scientific article published on October 26, 2010

List of works by Dan L. Nicolae

(Too) great expectations: the challenges in replicating asthma disease genes

116 Genome-Wide Association Studies of Asthma Indicate Opposite Immunopathogenesis Direction From Autoimmune Diseases.

A Genome Scan in 260 Inflammatory Bowel Disease-Affected Relative Pairs

A Genome Scan in 260 Inflammatory Bowel Disease-Affected Relative Pairs

A Nondegenerate Code of Deleterious Variants in Mendelian Loci Contributes to Complex Disease Risk

A common cortactin gene variation confers differential susceptibility to severe asthma

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

A frameshift mutation in NOD2 associated with susceptibility to Crohn's disease

A functional data analysis approach for genetic association studies ⬇️

A gene-based association method for mapping traits using reference transcriptome data

A genome-wide association study identifies IL23R as an inflammatory bowel disease gene

A genome-wide association study identifies a novel major locus for glycemic control in type 1 diabetes, as measured by both A1C and glucose

A genome-wide association study of early-onset breast cancer identifies PFKM as a novel breast cancer gene and supports a common genetic spectrum for breast cancer at any age.

A genome-wide scan for preeclampsia in the Netherlands

A genome-wide scan reveals a maternal susceptibility locus for pre-eclampsia on chromosome 2p13.

A genome-wide survey of CD4(+) lymphocyte regulatory genetic variants identifies novel asthma genes

A meta-analysis of genome-wide association studies for serum total IgE in diverse study populations

A signature of evolutionary constraint on a subset of ectopically expressed olfactory receptor genes

A study of CNVs as trait-associated polymorphisms and as expression quantitative trait loci

A theory of statistical models for Monte Carlo integration

A unified set-based test with adaptive filtering for gene-environment interaction analyses

Accurate imputation of rare and common variants in a founder population from a small number of sequenced individuals

Allele-Specific Targeting of microRNAs to HLA-G and Risk of Asthma

Allele-specific targeting of microRNAs to HLA-G and risk of asthma

An admixture mapping meta-analysis implicates genetic variation at 18q21 with asthma susceptibility in Latinos

An evolutionary framework for association testing in resequencing studies.

An exponential combination procedure for set-based association tests in sequencing studies

Association Tests for Rare Variants

Association studies for asthma and atopic diseases: a comprehensive review of the literature

Association studies for untyped markers with TUNA

Characterizing the expression of the human olfactory receptor gene family using a novel DNA microarray

Common variants at five new loci associated with early-onset inflammatory bowel disease

Coverage and characteristics of the Affymetrix GeneChip Human Mapping 100K SNP set.

Crohn's disease-associated NOD2 variants share a signaling defect in response to lipopolysaccharide and peptidoglycan

Dominant-negative TLR5 polymorphism reduces adaptive immune response to flagellin and negatively associates with Crohn's disease

Effect of variation in CHI3L1 on serum YKL-40 level, risk of asthma, and lung function

Effects of Sequence and Structure on the Hypermutability of Immunoglobulin Genes

Effects of dog ownership and genotype on immune development and atopy in infancy

Estimating Variance Components in Functional Linear Models With Applications to Genetic Heritability

Ethnic differences and functional analysis of MET mutations in lung cancer

Ethnic-specific associations of rare and low-frequency DNA sequence variants with asthma

Ethnicity-specific pharmacogenetics: the case of warfarin in African Americans

Evidence for gene-environment interactions in a linkage study of asthma and smoking exposure

Exome sequencing reveals a novel mutation for autosomal recessive non-syndromic mental retardation in the TECR gene on chromosome 19p13

Finding disease variants in Mendelian disorders by using sequence data: methods and applications

Fine mapping and positional candidate studies identify HLA-G as an asthma susceptibility gene on chromosome 6p21

Further replication studies of the EVE Consortium meta-analysis identifies 2 asthma risk loci in European Americans

GEL: a novel genotype calling algorithm using empirical likelihood

GWAS to Sequencing: Divergence in Study Design and Analysis

Gene Expression Profiling in Blood Provides Reproducible Molecular Insights into Asthma Control

Gene, region and pathway level analyses in whole-genome studies

Gene-environment interaction effects on the development of immune responses in the 1st year of life

Genetic associations with viral respiratory illnesses and asthma control in children.

Genetic variants associated with idiopathic pulmonary fibrosis susceptibility and mortality: a genome-wide association study

Genetic variation in immunoregulatory pathways and atopic phenotypes in infancy

Genome-Wide Methylation Study Identifies an IL-13-induced Epigenetic Signature in Asthmatic Airways

Genome-wide ancestry association testing identifies a common European variant on 6q14.1 as a risk factor for asthma in African American subjects

Genome-wide association and meta-analysis in populations from Starr County, Texas, and Mexico City identify type 2 diabetes susceptibility loci and enrichment for expression quantitative trait loci in top signals

Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease

Genome-wide association studies of asthma indicate opposite immunopathogenesis direction from autoimmune diseases

Genome-wide association study and admixture mapping reveal new loci associated with total IgE levels in Latinos

Genome-wide association study identifies new susceptibility loci for Crohn disease and implicates autophagy in disease pathogenesis

Genome-wide association study of lung function phenotypes in a founder population

Genome-wide association study of plasma lipoprotein(a) levels identifies multiple genes on chromosome 6q

Genome-wide association study of recalcitrant atopic dermatitis in Korean children

Genome-wide interaction studies reveal sex-specific asthma risk alleles

Genome-wide meta-analysis for severe diabetic retinopathy

Host genetic variation in mucosal immunity pathways influences the upper airway microbiome.

Identification of novel susceptibility loci for inflammatory bowel disease on chromosomes 1p, 3q, and 4q: Evidence for epistasis between 1p and IBD1 ⬇️

Imputing Gene Expression in Uncollected Tissues Within and Beyond GTEx

Increased protein-coding mutations in the mitochondrial genome of African American women with preeclampsia

Integrated genome-wide association, coexpression network, and expression single nucleotide polymorphism analysis identifies novel pathway in allergic rhinitis

Integration of mouse and human genome-wide association data identifies KCNIP4 as an asthma gene

MDR1 Ala893 polymorphism is associated with inflammatory bowel disease

MERLIN...and the Geneticist's Stone? ⬇️

Marbled inflation from population structure in gene-based association studies with rare variants

Maternal asthma and microRNA regulation of soluble HLA-G in the airway

Measuring the relative information in allele-sharing linkage studies

Meta-analysis of genome-wide association studies of asthma in ethnically diverse North American populations