Regulatory polymorphisms modulate the expression of HLA class II molecules and promote autoimmunity

Genetics and novel aspects of therapies in systemic lupus erythematosus

(2015) Manfred Relle et al.   AUTOIMMUNITY REVIEWS

Immunogenetics of systemic lupus erythematosus: A comprehensive review

(2015) Yogita Ghodke-Puranik et al.   JOURNAL OF AUTOIMMUNITY

Effect of UBE2L3 genotype on regulation of the linear ubiquitin chain assembly complex in systemic lupus erythematosus

(2015) Myles Lewis et al.   LANCET

A global reference for human genetic variation

(2015) Richard A. Gibbs et al.   NATURE

Genetics and pathogenesis of systemic lupus erythematosus and lupus nephritis

(2015) Chandra Mohan et al.   Nature Reviews Nephrology

Impact of autoimmune risk alleles on the immune system

(2015) John P Ray et al.   Genome Medicine

ZNF143 provides sequence specificity to secure chromatin interactions at gene promoters

(2015) Swneke D. Bailey et al.   Nature Communications

Antigen Presentation in the Autoimmune Diabetes of the NOD Mouse

(2014) Emil R. Unanue   Annual Review of Immunology

MHC associations with clinical and autoantibody manifestations in European SLE

(2014) D L Morris et al.   GENES AND IMMUNITY

GWAS identifies novel SLE susceptibility genes and explains the association of the HLA region

(2014) D L Armstrong et al.   GENES AND IMMUNITY

Value of HLA-DR genotype in systemic lupus erythematosus and lupus nephritis: a meta-analysis

(2014) Zhili Niu et al.   International Journal of Rheumatic Diseases

Human Leukocyte Antigens and Systemic Lupus Erythematosus: A Protective Role for the HLA-DR6 Alleles DRB1*13:02 and *14:03

(2014) Hiroshi Furukawa et al.   PLoS One

Polarization of the Effects of Autoimmune and Neurodegenerative Risk Alleles in Leukocytes

(2014) T. Raj et al.   SCIENCE

Innate Immune Activity Conditions the Effect of Regulatory Variants upon Monocyte Gene Expression

(2014) B. P. Fairfax et al.   SCIENCE

The HLA-DRβ1 amino acid positions 11–13–26 explain the majority of SLE–MHC associations

(2014) Kwangwoo Kim et al.   Nature Communications

Disease Mechanisms in Rheumatology-Tools and Pathways: Defining Functional Genetic Variants in Autoimmune Diseases

(2014) Shaofeng Wang et al.   Arthritis & Rheumatology

Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions

(2013) N. C. Sheffield et al.   GENOME RESEARCH

Allelic heterogeneity in NCF2 associated with systemic lupus erythematosus (SLE) susceptibility across four ethnic populations

(2013) Xana Kim-Howard et al.   HUMAN MOLECULAR GENETICS

A survey of rare coding variants in candidate genes in schizophrenia by deep sequencing

(2013) X Hu et al.   MOLECULAR PSYCHIATRY

Negligible impact of rare autoimmune-locus coding-region variants on missing heritability

(2013) Karen A. Hunt et al.   NATURE

Transcriptome and genome sequencing uncovers functional variation in humans

(2013) Tuuli Lappalainen et al.   NATURE

A large-scale screen for coding variants predisposing to psoriasis

(2013) Huayang Tang et al.   NATURE GENETICS

Meta-analysis of genome-wide association studies identifies ten loci influencing allergic sensitization

(2013) Klaus Bønnelykke et al.   NATURE GENETICS

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

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

Transcriptional programming of dendritic cells for enhanced MHC class II antigen presentation

(2013) Bryan Vander Lugt et al.   NATURE IMMUNOLOGY

Autoantibodies and SLE—the threshold for disease

(2013) Nancy J. Olsen et al.   Nature Reviews Rheumatology

Quantifying Missing Heritability at Known GWAS Loci

(2013) Alexander Gusev et al.   PLoS Genetics

Unraveling Multiple MHC Gene Associations with Systemic Lupus Erythematosus: Model Choice Indicates a Role for HLA Alleles and Non-HLA Genes in Europeans

(2012) David L. Morris et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Variation in theICAM1–ICAM4–ICAM5locus is associated with systemic lupus erythematosus susceptibility in multiple ancestries

(2012) Kwangwoo Kim et al.   ANNALS OF THE RHEUMATIC DISEASES

Transancestral mapping of the MHC region in systemic lupus erythematosus identifies new independent and interacting loci atMSH5, HLA-DPB1andHLA-G

(2012) Michelle M A Fernando et al.   ANNALS OF THE RHEUMATIC DISEASES

Genome-wide association analysis reveals 12q13.3–q14.1 as new risk locus for sarcoidosis

(2012) Sylvia Hofmann et al.   EUROPEAN RESPIRATORY JOURNAL

Personal and population genomics of human regulatory variation

(2012) B. Vernot et al.   GENOME RESEARCH

Annotation of functional variation in personal genomes using RegulomeDB

(2012) A. P. Boyle et al.   GENOME RESEARCH

Genome-wide pathway analysis of genome-wide association studies on systemic lupus erythematosus and rheumatoid arthritis

(2012) Young Ho Lee et al.   MOLECULAR BIOLOGY REPORTS

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

An integrated map of genetic variation from 1,092 human genomes

(2012)   NATURE

Architecture of the human regulatory network derived from ENCODE data

(2012) Mark B. Gerstein et al.   NATURE

Five amino acids in three HLA proteins explain most of the association between MHC and seropositive rheumatoid arthritis

(2012) Soumya Raychaudhuri et al.   NATURE GENETICS

Genetics of gene expression in primary immune cells identifies cell type–specific master regulators and roles of HLA alleles

(2012) Benjamin P Fairfax et al.   NATURE GENETICS

Bayesian inference analyses of the polygenic architecture of rheumatoid arthritis

(2012) Eli A Stahl et al.   NATURE GENETICS

Systematic Localization of Common Disease-Associated Variation in Regulatory DNA

(2012) M. T. Maurano et al.   SCIENCE

Functional analysis of transcription factor binding sites in human promoters

(2012) Troy W Whitfield et al.   GENOME BIOLOGY

Mapping Rare and Common Causal Alleles for Complex Human Diseases

(2011) Soumya Raychaudhuri   CELL

Pathogenesis of systemic lupus erythematosus revisited 2011: End organ resistance to damage, autoantibody initiation and diversification, and HLA-DR

(2011) Shu Man Fu et al.   JOURNAL OF AUTOIMMUNITY

Association of a functional variant downstream of TNFAIP3 with systemic lupus erythematosus

(2011) Indra Adrianto et al.   NATURE GENETICS

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

Systemic Lupus Erythematosus

(2011) George C. Tsokos   NEW ENGLAND JOURNAL OF MEDICINE

Internal standard-based analysis of microarray data2—Analysis of functional associations between HVE-genes

(2011) Igor M. Dozmorov et al.   NUCLEIC ACIDS RESEARCH

Genetic predisposition to autoimmunity – What have we learned?

(2011) Ekta Rai et al.   SEMINARS IN IMMUNOLOGY

Differential Genetic Associations for Systemic Lupus Erythematosus Based on Anti–dsDNA Autoantibody Production

(2011) Sharon A. Chung et al.   PLoS Genetics

Risk Alleles for Systemic Lupus Erythematosus in a Large Case-Control Collection and Associations with Clinical Subphenotypes

(2011) Kimberly E. Taylor et al.   PLoS Genetics

Association of NCF2, IKZF1, IRF8, IFIH1, and TYK2 with Systemic Lupus Erythematosus

(2011) Deborah S. Cunninghame Graham et al.   PLoS Genetics

Trans-eQTLs Reveal That Independent Genetic Variants Associated with a Complex Phenotype Converge on Intermediate Genes, with a Major Role for the HLA

(2011) Rudolf S. N. Fehrmann et al.   PLoS Genetics

Interpretation of Association Signals and Identification of Causal Variants from Genome-wide Association Studies

(2010) Kai Wang et al.   AMERICAN JOURNAL OF HUMAN GENETICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

A map of human genome variation from population-scale sequencing

(2010) Richard M. Durbin et al.   NATURE

The NIH Roadmap Epigenomics Mapping Consortium

(2010) Bradley E Bernstein et al.   NATURE BIOTECHNOLOGY

Common SNPs explain a large proportion of the heritability for human height

(2010) Jian Yang et al.   NATURE GENETICS

A method and server for predicting damaging missense mutations

(2010) Ivan A Adzhubei et al.   NATURE METHODS

Uncovering the roles of rare variants in common disease through whole-genome sequencing

(2010) Elizabeth T. Cirulli et al.   NATURE REVIEWS GENETICS

Genetic susceptibility to systemic lupus erythematosus in the genomic era

(2010) Yun Deng et al.   Nature Reviews Rheumatology

Formulating a Historical and Demographic Model of Recent Human Evolution Based on Resequencing Data from Noncoding Regions

(2010) Guillaume Laval et al.   PLoS One

Genetic Factors Predisposing to Systemic Lupus Erythematosus and Lupus Nephritis

(2010) Paula S. Ramos et al.   SEMINARS IN NEPHROLOGY

A Commentary on ‘Common SNPs Explain a Large Proportion of the Heritability for Human Height’ by Yang et al. (2010)

(2010) Peter M. Visscher et al.   Twin Research and Human Genetics

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Genome-wide association studies: quality control and population-based measures

(2009) Andreas Ziegler   GENETIC EPIDEMIOLOGY

Review of recent genome-wide association scans in lupus

(2009) R. R. Graham et al.   JOURNAL OF INTERNAL MEDICINE

Finding the missing heritability of complex diseases

(2009) Teri A. Manolio et al.   NATURE

A large-scale replication study identifies TNIP1, PRDM1, JAZF1, UHRF1BP1 and IL10 as risk loci for systemic lupus erythematosus

(2009) Vesela Gateva et al.   NATURE GENETICS

Genome-wide association study in a Chinese Han population identifies nine new susceptibility loci for systemic lupus erythematosus

(2009) Jian-Wen Han et al.   NATURE GENETICS

Genetic susceptibility to SLE: new insights from fine mapping and genome-wide association studies

(2009) Isaac T. W. Harley et al.   NATURE REVIEWS GENETICS

From evolutionary genetics to human immunology: how selection shapes host defence genes

(2009) Luis B. Barreiro et al.   NATURE REVIEWS GENETICS

Beyond odds ratios — communicating disease risk based on genetic profiles

(2009) Peter Kraft et al.   NATURE REVIEWS GENETICS

Mapping complex disease traits with global gene expression

(2009) William Cookson et al.   NATURE REVIEWS GENETICS

Internal standard-based analysis of microarray data. Part 1: analysis of differential gene expressions

(2009) I. Dozmorov et al.   NUCLEIC ACIDS RESEARCH

TiGER: a database for tissue-specific gene expression and regulation

(2008) Xiong Liu et al.   BMC BIOINFORMATICS

The insulator factor CTCF controls MHC class II gene expression and is required for the formation of long-distance chromatin interactions

(2008) Parimal Majumder et al.   JOURNAL OF EXPERIMENTAL MEDICINE

A nonsynonymous functional variant in integrin-αM (encoded by ITGAM) is associated with systemic lupus erythematosus

(2008) Swapan K Nath et al.   NATURE GENETICS

Genome-wide association scan in women with systemic lupus erythematosus identifies susceptibility variants in ITGAM, PXK, KIAA1542 and other loci

(2008) John B Harley et al.   NATURE GENETICS

Functional variants in the B-cell gene BANK1 are associated with systemic lupus erythematosus

(2008) Sergey V Kozyrev et al.   NATURE GENETICS

Genetic variants near TNFAIP3 on 6q23 are associated with systemic lupus erythematosus

(2008) Robert R Graham et al.   NATURE GENETICS

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Cumulative Association of Five Genetic Variants with Prostate Cancer

(2008) S. Lilly Zheng et al.   NEW ENGLAND JOURNAL OF MEDICINE

Association of Systemic Lupus Erythematosus withC8orf13–BLKandITGAM–ITGAX

(2008) Geoffrey Hom et al.   NEW ENGLAND JOURNAL OF MEDICINE

Revealing the architecture of gene regulation: the promise of eQTL studies

(2008) Yoav Gilad et al.   TRENDS IN GENETICS

Gender-specific influence of the chromosome 16 chemokine gene cluster on the susceptibility to Multiple Sclerosis

(2007) Daniela Galimberti et al.   JOURNAL OF THE NEUROLOGICAL SCIENCES