Now showing items 1-15 of 15

    • Analyzing networks of phenotypes in complex diseases: methodology and applications in COPD 

      Chu, Jen-hwa; Hersh, Craig P; Castaldi, Peter J; Cho, Michael H; Raby, Benjamin A; Laird, Nan; Bowler, Russell; Rennard, Stephen; Loscalzo, Joseph; Quackenbush, John; Silverman, Edwin K (BioMed Central, 2014)
      Background: The investigation of complex disease heterogeneity has been challenging. Here, we introduce a network-based approach, using partial correlations, that analyzes the relationships among multiple disease-related ...
    • The Association of a SNP Upstream of INSIG2 with Body Mass Index is Reproduced in Several but Not All Cohorts 

      Emilsson, Valur; Hinney, Anke; Heid, Iris M; Zhu, Xiaofeng; Thorleifsson, Gudmar; Gunnarsdottir, Steinunn; Walters, G. Bragi; Thorsteinsdottir, Unnur; Kong, Augustine; Gulcher, Jeffrey; Nguyen, Thuy Trang; Scherag, André; Pfeufer, Arne; Meitinger, Thomas; Brönner, Günter; Rief, Winfried; Soto-Quiros, Manuel E; Avila, Lydiana; Groop, Leif; Tuomi, Tiinamaija; Isomaa, Bo; Bengtsson, Kristina; Butler, Johannah L; Vollmert, Caren; Celedón, Juan C; Wichmann, H. Erich; Hebebrand, Johannes; Stefansson, Kari; Abecasis, Gonçalo; Lyon, Helen N; Su, Jessica Ann Lasky; Klanderman, Barbara Jordan; Raby, Benjamin Alexander; Silverman, Edwin Kepner; Weiss, Scott Tillman; Laird, Nan M.; Ding, Xiao; Cooper, Richard S; Fox, Caroline; O'Donnell, Christopher Joseph; Lange, Christoph; Hirschhorn, Joel Naom (Public Library of Science, 2007)
      A SNP upstream of the INSIG2 gene, rs7566605, was recently found to be associated with obesity as measured by body mass index (BMI) by Herbert and colleagues. The association between increased BMI and homozygosity for the ...
    • Cluster analysis in severe emphysema subjects using phenotype and genotype data: an exploratory investigation 

      Cho, Michael Hyosang; Washko, George Richard; Hoffmann, Thomas J; Criner, Gerard J; Hoffman, Eric A; Martinez, Fernando J; Laird, Nan M.; Reilly, John; Silverman, Edwin Kepner (BioMed Central, 2010)
      Background: Numerous studies have demonstrated associations between genetic markers and COPD, but results have been inconsistent. One reason may be heterogeneity in disease definition. Unsupervised learning approaches may ...
    • A comparative analysis of family-based and population-based association tests using whole genome sequence data 

      Zhou, Jin J; Yip, Wai-Ki; Cho, Michael H; Qiao, Dandi; McDonald, Merry-Lynn N; Laird, Nan M (BioMed Central, 2014)
      The revolution in next-generation sequencing has made obtaining both common and rare high-quality sequence variants across the entire genome feasible. Because researchers are now faced with the analytical challenges of ...
    • Comparison of Linkage and Association Strategies for Quantitative Traits Using the COGA Dataset 

      McQueen, Matthew B; Murphy, Amy; Kraft, Peter; Su, Jessica Ann Lasky; Lazarus, Ross; Laird, Nan M.; Lange, Christoph; Van Steen, Kristel (BioMed Central, 2005)
      Genome scans using dense single-nucleotide polymorphism (SNP) data have recently become a reality. It is thought that the increase in information content for linkage analysis as a result of the denser scans will help refine ...
    • EFBAT: Exact Family-Based Association Tests 

      Schneiter, Kady; Degnan, James H; Corcoran, Christopher; Xu, Xin; Laird, Nan M. (BioMed Central, 2007)
      Background: Family-based association tests are important tools for investigating genetic risk factors of complex diseases. These tests are especially valuable for being robust to population structure. We introduce a tool, ...
    • A general semi-parametric approach to the analysis of genetic association studies in population-based designs 

      Lutz, Sharon; Yip, Wai-Ki; Hokanson, John; Laird, Nan M.; Lange, Christoph (BioMed Central, 2013)
      Background: For genetic association studies in designs of unrelated individuals, current statistical methodology typically models the phenotype of interest as a function of the genotype and assumes a known statistical model ...
    • A genome-wide association study identifies risk loci for spirometric measures among smokers of European and African ancestry 

      Lutz, Sharon M.; Cho, Michael H.; Young, Kendra; Hersh, Craig P.; Castaldi, Peter J.; McDonald, Merry-Lynn; Regan, Elizabeth; Mattheisen, Manuel; DeMeo, Dawn L.; Parker, Margaret; Foreman, Marilyn; Make, Barry J.; Jensen, Robert L.; Casaburi, Richard; Lomas, David A.; Bhatt, Surya P.; Bakke, Per; Gulsvik, Amund; Crapo, James D.; Beaty, Terri H.; Laird, Nan M.; Lange, Christoph; Hokanson, John E.; Silverman, Edwin K. (BioMed Central, 2015)
      Background: Pulmonary function decline is a major contributor to morbidity and mortality among smokers. Post bronchodilator FEV1 and FEV1/FVC ratio are considered the standard assessment of airflow obstruction. We performed ...
    • Genomic Screening in Family-Based Association Testing 

      Murphy, Amy; McQueen, Matthew B; Su, Jessica Ann Lasky; Kraft, Peter; Lazarus, Ross; Laird, Nan M.; Lange, Christoph; Van Steen, Kristel (BioMed Central, 2005)
      Due to the recent gains in the availability of single-nucleotide polymorphism data, genome-wide association testing has become feasible. It is hoped that this additional data may confirm the presence of disease susceptibility ...
    • Identifying Causal Rare Variants of Disease Through Family-based Analysis of Genetics Analysis Workshop 17 Data Set 

      Yip, Wai-Ki; De, Gourab; Raby, Benjamin Alexander; Laird, Nan M. (BioMed Central, 2011)
      Linkage- and association-based methods have been proposed for mapping disease-causing rare variants. Based on the family information provided in the Genetic Analysis Workshop 17 data set, we formulate a two-pronged approach ...
    • Identifying Rare Variants from Exome Scans: The GAW17 Experience 

      Ghosh, Saurabh; Bickeböller, Heike; Bailey-Wilson, Joan E; Cantor, Rita; Culverhouse, Robert; Daw, Warwick; DeStefano, Anita L; Engelman, Corinne D; Hinrichs, Anthony; Houwing-Duistermaat, Jeanine; König, Inke R; Kent, Jack; Pankratz, Nathan; Pugh, Elizabeth; Suarez, Brian; Thomas, Alun; Tintle, Nathan; Zhu, Xiaofeng; Ziegler, Andreas; MacCluer, Jean W; Almasy, Laura; Bailey, Julia; Laird, Nan M.; Paterson, Andrew; Sun, Yan (BioMed Central, 2011)
      Genetic Analysis Workshop 17 (GAW17) provided a platform for evaluating existing statistical genetic methods and for developing novel methods to analyze rare variants that modulate complex traits. In this article, we present ...
    • Identifying Rare Variants Using a Bayesian Regression Approach 

      Yan, Aimin; Laird, Nan M.; Li, Cheng (BioMed Central, 2011)
      Recent advances in next-generation sequencing technologies have made it possible to generate large amounts of sequence data with rare variants in a cost-effective way. Statistical methods that test variants individually ...
    • Maximum Likelihood from Incomplete Data via the EM Algorithm 

      Dempster, Arthur P.; Laird, Nan M.; Rubin, Donald B. (1976)
      A broadly applicable algorithm for computing maximum likelihood estimates from incomplete data is presented at various levels of generality. Theory showing the monotone behavior of the likelihood and convergence of the ...
    • Meta-Analysis of the INSIG2 Association with Obesity Including 74,345 Individuals: Does Heterogeneity of Estimates Relate to Study Design? 

      Heid, Iris M.; Huth, Cornelia; Loos, Ruth J. F.; Kronenberg, Florian; Adamkova, Vera; Anand, Sonia S.; Ardlie, Kristin; Biebermann, Heike; Bjerregaard, Peter; Boeing, Heiner; Bouchard, Claude; Ciullo, Marina; Cooper, Jackie A.; Corella, Dolores; Dina, Christian; Engert, James C.; Fisher, Eva; Francès, Francesc; Froguel, Philippe; Hebebrand, Johannes; Hegele, Robert A.; Hinney, Anke; Hoehe, Margret R.; Hubacek, Jaroslav A.; Humphries, Steve E.; Hunt, Steven C.; Illig, Thomas; Järvelin, Marjo-Riita; Kaakinen, Marika; Kollerits, Barbara; Krude, Heiko; Kumar, Jitender; Lange, Leslie A.; Langer, Birgit; Li, Shengxu; Luchner, Andreas; Meyre, David; Mohlke, Karen L.; Mooser, Vincent; Nebel, Almut; Nguyen, Thuy Trang; Paulweber, Bernhard; Perusse, Louis; Rankinen, Tuomo; Rosskopf, Dieter; Schreiber, Stefan; Sengupta, Shantanu; Sorice, Rossella; Suk, Anita; Thorleifsson, Gudmar; Thorsteinsdottir, Unnur; Völzke, Henry; Vimaleswaran, Karani S.; Wareham, Nicholas J.; Waterworth, Dawn; Yusuf, Salim; Lindgren, Cecilia; McCarthy, Mark I.; Wichmann, H.-Erich; Allison, David B.; Hu, Frank B.; Qi, Lu; Lyon, Helen N; Lange, Christoph; Hirschhorn, Joel Naom; Laird, Nan M. (Public Library of Science, 2009)
      The INSIG2 rs7566605 polymorphism was identified for obesity (BMI≥30 kg/m2) in one of the first genome-wide association studies, but replications were inconsistent. We collected statistics from 34 studies (n = 74,345), ...
    • Ozone exposure, vitamin C intake, and genetic susceptibility of asthmatic children in Mexico City: a cohort study 

      Moreno-Macías, Hortensia; Dockery, Douglas W.; Schwartz, Joel David; Gold, Diane R.; Laird, Nan M.; Sienra-Monge, Juan J; Del Río-Navarro, Blanca E; Ramírez-Aguilar, Matiana; Barraza-Villarreal, Albino; Li, Huiling; London, Stephanie J; Romieu, Isabelle (BioMed Central, 2013)
      Background: We previously reported that asthmatic children with GSTM1 null genotype may be more susceptible to the acute effect of ozone on the small airways and might benefit from antioxidant supplementation. This study ...