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The interaction between smoking and HLA genes in multiple sclerosis: replication and refinement

Interactions between environment and genetics may contribute to multiple sclerosis (MS) development. We investigated whether the previously observed interaction between smoking and HLA genotype in the Swedish population could be replicated, refined and extended to include other populations. We used six independent case–control studies from five different countries (Sweden...

Genome-Wide Assessment of Differential DNA Methylation Associated with Autoantibody Production in Systemic Lupus Erythematosus

Systemic lupus erythematosus (SLE) is characterized by the development of autoantibodies associated with specific clinical manifestations. Previous studies have shown an association between differential DNA methylation and SLE susceptibility, but have not investigated SLE-related autoantibodies. Our goal was to determine whether DNA methylation is associated with production of...

Genome-Wide DNA Methylation Profiles Indicate CD8+ T Cell Hypermethylation in Multiple Sclerosis

Objective Determine whether MS-specific DNA methylation profiles can be identified in whole blood or purified immune cells from untreated MS patients. Methods Whole blood, CD4+ and CD8+ T cell DNA from 16 female, treatment naïve MS patients and 14 matched controls was profiled using the HumanMethylation450K BeadChip. Genotype data were used to assess genetic homogeneity of our...

Genetic variants in ARID5B and CEBPE are childhood ALL susceptibility loci in Hispanics

Recent genome-wide studies conducted in European Whites have identified novel susceptibility genes for childhood acute lymphoblastic leukemia (ALL). We sought to examine whether these loci are susceptibility genes among Hispanics, whose reported incidence of childhood ALL is the highest of all ethnic groups in California, and whether their effects differ between Hispanics and non...

An application of Random Forests to a genome-wide association dataset: Methodological considerations & new findings

2 Lisa F Barcellos 1 0 Genetic Epidemiology and Genomics Laboratory, Division of Epidemiology, School of Public Health, University of California , Berkeley, CA , USA 1 Division of Biostatistics

SNP Association Mapping across the Extended Major Histocompatibility Complex and Risk of B-Cell Precursor Acute Lymphoblastic Leukemia in Children

Lisa F. Barcellos Patricia A. Buffler Matthaios Speletas, University of Thessaly, Faculty of Medicine, Greece The extended major histocompatibility complex (xMHC) is the most gene-dense region of the

Fetal growth and body size genes and risk of childhood acute lymphoblastic leukemia

Accumulating evidence suggests that childhood acute lymphoblastic leukemia (ALL) may be initiated in utero or early in the postnatal period. High birth weight (or rapid fetal growth) is associated with risk of ALL, but the mechanisms are not understood. In a population-based epidemiologic study of childhood ALL, we utilized a haplotype-based approach to assess the role of eight...

Fine-Mapping the Genetic Association of the Major Histocompatibility Complex in Multiple Sclerosis: HLA and Non-HLA Effects

The major histocompatibility complex (MHC) region is strongly associated with multiple sclerosis (MS) susceptibility. HLA-DRB1*15:01 has the strongest effect, and several other alleles have been reported at different levels of validation. Using SNP data from genome-wide studies, we imputed and tested classical alleles and amino acid polymorphisms in 8 classical human leukocyte...

Variation in xenobiotic transport and metabolism genes, household chemical exposures, and risk of childhood acute lymphoblastic leukemia

BackgroundRecent studies suggest that environmental exposures to pesticides, tobacco, and other xenobiotic chemicals may increase risk of childhood acute lymphoblastic leukemia (ALL). We sought to evaluate the role of genes involved in xenobiotic transport and metabolism in childhood ALL risk, both alone and in conjunction with household chemical exposures previously found to be...

Associations between Single Nucleotide Polymorphisms in Iron-Related Genes and Iron Status in Multiethnic Populations

. Eckfeldt Paul C. Adams Ronald T. Acton Joseph A. Murray Catherine Leiendecker-Foster Beverly M. Snively Lisa F. Barcellos James D. Cook Gordon D. McLaren The existence of multiple inherited disorders of

118 SNPs of folate-related genes and risks of spina bifida and conotruncal heart defects

Background Folic acid taken in early pregnancy reduces risks for delivering offspring with several congenital anomalies. The mechanism by which folic acid reduces risk is unknown. Investigations into genetic variation that influences transport and metabolism of folate will help fill this data gap. We focused on 118 SNPs involved in folate transport and metabolism. Methods Using...

Haplotypes of DNA repair and cell cycle control genes, X-ray exposure, and risk of childhood acute lymphoblastic leukemia

Background Acute leukemias of childhood are a heterogeneous group of malignancies characterized by cytogenetic abnormalities, such as translocations and changes in ploidy. These abnormalities may be influenced by altered DNA repair and cell cycle control processes. Methods We examined the association between childhood acute lymphoblastic leukemia (ALL) and 32 genes in DNA repair...

Interrogating the complex role of chromosome 16p13.13 in multiple sclerosis susceptibility: independent genetic signals in the CIITA–CLEC16A–SOCS1 gene complex

David A. Hafler 5 8 Stephen L. Hauser 9 10 Stephen J. Sawcer 6 Margaret A. Pericak-Vance 2 Lisa F. Barcellos 3 Douglas P. Mortlock 4 Jonathan L. Haines 4 0 Program in NeuroPsychiatric Genomics, Center for

Association of the truncating splice site mutation in BTNL2 with multiple sclerosis is secondary to HLA-DRB1*15

The major histocompatibility complex human leukocyte antigen (HLA)-DRB1*15 (DR2) haplotype is strongly associated with risk of multiple sclerosis (MS). The primary susceptibility has been localized to only ∼200 kb encompassing the HLA-DR and -DQ loci. Further dissection of disease association with this region is demanding because of the high levels of linkage disequilibrium (LD...

Comparison of Statistical Methods for Estimating Genetic Admixture in a Lung Cancer Study of African Americans and Latinos

Melinda C. Aldrich ) Steve Selvin Helen M. Hansen Lisa F. Barcellos Margaret R. Wrensch Jennette D. Sison Charles P. Quesenberry Rick A. Kittles Gabriel Silva Patricia A. Buffler Michael F. Seldin ... , California (Lisa F. Barcellos, Patricia A. Buffler); Division of Research, Kaiser Permanente, Oakland, California (Charles P. Quesenberry); Department of Medicine, Division of Biological Sciences, University

Genome-Wide Association Study Identifies Genetic Loci Associated with Iron Deficiency

Catherine Leiendecker- Foster Kenneth B. Beckman John H. Eckfeldt Lisa F. Barcellos Joseph A. Murray Paul C. Adams Ronald T. Acton Anthony A. Killeen Gordon D. McLaren Marc Tjwa, University of Frankfurt

Evidence for CRHR1 in multiple sclerosis using supervised machine learning and meta-analysis in 12 566 individuals

Stephen L. Hauser Jorge R. Oksenberg Stephen J. Sawcer Margaret A. Pericak-Vance Jonathan L. Haines International Multiple Sclerosis Genetics Consortium Lisa F. Barcellos 0 The Author 2010. Published by

Variation Within DNA Repair Pathway Genes and Risk of Multiple Sclerosis

Epidemiology and Genomics Laboratory, Division of Epidemiology, School of Public Health, University of California, Berkeley, California (Farren B. S. Briggs, Benjamin A. Goldstein, Lisa F. Barcellos); Division

CIITA variation in the presence of HLA-DRB1*1501 increases risk for multiple sclerosis

The MHC class II transactivator gene (CIITA) is an important transcription factor regulating gene required for HLA class II MHC-restricted antigen presentation. Association with HLA class II variation, particularly HLA-DRB1*1501, has been well-established for multiple sclerosis (MS). In addition, the −168A/G CIITA promoter variant (rs3087456) has been reported to be associated...