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IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)

作者： Sungkyoung Choi Sungho Won Bioinformatics Program Seoul National University Seoul South Korea Department of Applied Statistics Chung-Ang University Seoul South Korea

We propose a new method for genome-wide association analysis with a family-based design. The proposed method is robust against population substructure while it is more efficient than the traditional method such as transmission disequilibrium test for related samples. The proposed method estimates the correlation matrix between individuals and then the principal component analysis is applied. To maximize the statistical power, we consider the additive polygenic model and a best linear unbiased predictor is used as offset. We confirmed that the proposed method is always efficient by simulation studies. The method will be applied to Framingham Heart study.

关键词： Bioinformatics Genomics Diseases Correlation Robustness Testing

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Estimating functional agent-based models: An application to bid shading in online markets format 11

Estimating functional agent-based models: An application to ...

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13th Annual Genetic and Evolutionary Computation Conference - Companion Publication, GECCO 2011 Companion

作者： Guo, Wei Jank, Wolfgang Rand, William Applied Mathematics and Statistics and Scientific Computation Program Department of Mathematics University of Maryland College Park MD United States Department of Decision Operations and Information Technology Robert H. Smith School of Business University of Maryland College Park MD United States Department of Marketing Robert H. Smith School of Business University of Maryland College Park MD United States

ISBN: (纸本)9781450306904

Bid shading is a common strategy in online auctions to avoid the "winner's curse". While almost all bidders shade their bids, at least to some degree, it is impossible to infer the degree and volume of shaded bids directly from observed bidding data. In fact, most bidding data only allows us to observe the resulting price process, i.e. whether prices increase fast (due to little shading) or whether they slow down (when all bidders shade their bids). In this work, we propose an agent-based model that simulates bidders with different bidding strategies and their interaction with one another. We calibrate that model (and hence estimate properties about the propensity and degree of shaded bids) by matching the emerging simulated price process with that of the observed auction data using genetic algorithms. From a statistical point of view, this is challenging because we match functional draws from simulated and real price processes. We propose several competing fitness functions and explore how the choice alters the resulting ABM calibration. We apply our model to the context of eBay auctions for digital cameras and show that a balanced fitness function yields the best results. © 2011 ACM.

关键词： Calibration

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I just like guys (girls)

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Qualitative Inquiry 2011年第9期17卷 875-875页

作者： Teman, Eric D. Program of Applied Statistics and Research Methods College of Education and Behavioral Sciences University of Northern Colorado Greeley CO 80639 McKee 518 Campus Box 124 United States

As part of an educational ethnography of a queer cultural center at a western United States university, I explored the center's cultural importance on the college campus and in its surrounding community. During the course of this study, I used semistructured interviews to inquire about the coming out experiences of four of my participants. Research poetry was used to capture the emotional and poignant words of my gay and lesbian participants. © The Author(s) 2011.

关键词： coming out cultural center educational ethnography gay GLBT research poetry university

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Parsimonious reconstruction of network evolution

Parsimonious reconstruction of network evolution

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Lecture Notes in Computer Science

作者： Patro, Rob Sefer, Emre Malin, Justin Marçais, Guillaume Navlakha, Saket Kingsford, Carl Center for Bioinformatics and Computational Biology University of Maryland College Park MD 20742 United States Department of Computer Science University of Maryland College Park MD 20742 United States Computational Biology Bioinformatics and Genomics Concentration Biological Sciences Graduate Program University of Maryland College Park MD 20742 United States Program in Applied Mathematics Statistics and Scientific Computation University of Maryland College Park MD 20742 United States School of Computer Science Carnegie Mellon University Pittsburgh PA 15213 United States

ISBN: (纸本)9783642230370

We consider the problem of reconstructing a maximally parsimonious history of network evolution under models that support gene duplication and loss and independent interaction gain and loss. We introduce a combinatorial framework for encoding network histories, and we give a fast procedure that, given a set of duplication histories, in practice finds network histories with close to the minimum number of interaction gain or loss events. In contrast to previous studies, our method does not require knowing the relative ordering of unrelated duplication events. Results on simulated histories suggest that common ancestral networks can be accurately reconstructed using this parsimony approach. © 2011 Springer-Verlag.

关键词： Genes

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Corrigendum to “Cannabis use, cognition and brain structure in first-episode psychosis” [Schizophr. Res., 147 (2013), 209–215]

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Schizophrenia Research 2013年第1期151卷 298-298页

作者： Cunha, Paulo Jannuzzi Rosa, Pedro Gomes P. de Mello Ayres, Adriana Duran, Fábio L.S. Santos, Luciana C. Scazufca, Marcia Menezes, Paulo R. dos Santos, Bernardo Murray, Robin M. Crippa, José Alexandre S. Busatto, Geraldo F. Schaufelberger, Maristela S. Laboratory of Psychiatric Neuroimaging (LIM-21) Department of Psychiatry Faculty of Medicine University of São Paulo (USP) Rua Dr Ovídio Pires de Campos s/n 05403-010 São Paulo SP Brazil Center for Interdisciplinary Research on Applied Neurosciences (NAPNA) USP Rua Dr Ovídio Pires de Campos s/n 05403-010 São Paulo SP Brazil Interdisciplinary Group of Studies on Alcohol and Drugs (GREA) and Equilibrium Program Department of Psychiatry Faculty of Medicine USP Rua Dr Ovídio Pires de Campos s/n 05403-010 São Paulo SP Brazil LIM-23 Institute of Psychiatry Clinics Hospital Faculty of Medicine USP Rua Dr Ovídio Pires de Campos s/n 05403-010 São Paulo SP Brazil Department of Preventive Medicine Faculty of Medicine USP Av. Dr. Arnaldo 455 2° andar Cerqueira César 01246-903 São Paulo SP Brazil CEAPPesq Institute of Mathematic and Statistics (IME) Department of Psychiatry USP Rua do Matão 1010 — Cidade Universitária 05508-090 São Paulo SP Brazil Department of Psychosis Studies Institute of Psychiatry King's College De Crespigny Park London SE5 8AF UK Department of Neuroscience and Behaviour Faculty of Medicine USP Av. Bandeirantes 3900 Monte Alegre 14048-900 Ribeirao Preto SP Brazil

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High-dimensional data fusion via joint manifold learning

High-dimensional data fusion via joint manifold learning

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2010 AAAI Fall Symposium

作者： Davenport, Mark A. Hegde, Chinmay Duarte, Marco F. Baraniuk, Richard G. Department of Statistics Stanford University Stanford CA 94305 United States Department of Electrical and Computer Engineering Rice University Houston TX 77005 United States Program in Applied and Computational Mathematics Princeton University Princeton NJ 08544 United States

ISBN: (纸本)9781577354888

The emergence of low-cost sensing architectures for diverse modalities has made it possible to deploy sensor networks that acquire large amounts of very high-dimensional data. To cope with such a data deluge, manifold models are often developed that provide a powerful theoretical and algorithmic framework for capturing the intrinsic structure of data governed by a low-dimensional set of ***, these models do not typically take into account dependencies among multiple sensors. We thus propose a new joint manifold framework for data ensembles that exploits such dependencies. We show that joint manifold structure can lead to improved performance for manifold learning. Additionally, we leverage recent results concerning random projections of manifolds to formulate a universal, network-scalable dimensionality reduction scheme that efficiently fuses the data from all sensors. Copyright © 2010, Association for the Advancement of Artificial Intelligence. All rights reserved.

关键词： Sensor networks

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The Rich-Gini-Simpson quadratic index of biodiversity

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Natural Science 2010年第10期2卷 1130-1137页

作者： Radu Cornel Guiasu Silviu Guiasu Environmental and Health Studies Program Department of Multidisciplinary Studies Glendon College York University Department of Mathematics and Statistics Faculty of Pure and Applied Sciences York University

The Gini-Simpson quadratic index is a classic measure of diversity, widely used by ecologists. As shown recently, however, this index is not suitable for the measurement of beta diversity when the number of species is very large. The objective of this paper is to introduce the Rich- Gini-Simpson quadratic index which preserves all the qualities of the classic Gini-Simpson index but behaves very well even when the number of species is very large. The additive partitioning of species diversity using the Rich-Gini- Simpson quadratic index and an application from island biogeography are analyzed.

关键词： Rich-Gini-Simpson Index of Species Diversity Additive Partitioning of Diversity Island Biogeography Biodiversity

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Two-way interaction analysis of obesity trait from Korean population using generalized MDR

Two-way interaction analysis of obesity trait from Korean po...

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IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)

作者： Sungyoung Lee Sohee Oh Min-Seok Kwon Seungyeoun Lee Taesung Park Interdisciplinary Program in Bioinformatics Seoul National University Seoul South Korea Department of Statistics Seoul National University Seoul South Korea Department of Applied Mathematics Sejong University Seoul South Korea

Most common complex traits such as obesity, hypertension, diabetes, and cancers are known to be associated with multiple genes, environmental factors, and epistasis. Recently, the development of advanced genotyping technologies allows us to perform the genome-wide association studies (GWAS). For detecting the effects of multiple genes on complex traits, many approaches have been proposed for GWAS. Multifactor dimensionality reduction (MDR) proposed by Ritchie et al. (2001) is one of the powerful methods for detecting epistasis, which detects high order interactions among genes. However, MDR is computationally intensive due to its requirement of testing all possible n-way combinations. Thus, it is not practically feasible to apply MDR directly to analyzing large-scale GWAS data. We propose an efficient strategy to perform MDR analysis for GWAS data. First, select a subset of genetic factors such as SNPs with some marginal significance. Second, perform MDR analysis only for the selected genetic factors. Third, provide MDR summary results through network graph. Even for the MDR analysis for the selected SNPs, a fast computing system is required. We developed our own GPU based system for the large-scale GWAS data. We applied our strategy to Korean Association REsource (KARE) (8,838 individuals with 101,837 SNPs) for detecting two-way interactions of genetic factors associated with body mass index (BMI). We identified several genes and pathways which have been known to be associated with obesity.

关键词： Obesity Bioinformatics Genomics Graphics processing unit Diabetes

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Now, he's not alive

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Qualitative Inquiry 2010年第8期16卷 611-611页

Through a mini-educational ethnography of a queer cultural center at a midsized, Western U.S. university, I explored the center's cultural importance on the college campus and in its surrounding community. During the course of this study, one of my gay male participants, an undergraduate student leader of the center, committed suicide. While interviewing several participants (three gay males and one lesbian), I inquired into their feelings about suicide in the gay community in general and into the suicide of the center's leader in particular. The words of four of my participants are captured in this poem. © The Author(s) 2010.

关键词： cultural center educational ethnography gay GLBT research poetry suicide university

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Do neighbourhood built and social environments have an influence on adult self-reported physical activity and overweight/obesity in the nation's capital?

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Canadian Journal of Diabetes 2011年第2期35卷 155-155页

作者： Prince, S.A. Kristjansson, E.A. Russell, K. Billette, J.-M. Ali, A. Sawada, M. Tremblay, M.S. Prud'homme, D. University of Ottawa Population Health PhD Program and Children's Hospital of Eastern Ontario Healthy Active Living and Obesity Research Group Ottawa Ontario Canada University of Ottawa Faculty of Social Sciences School of Psychology Ottawa Ontario Canada Ottawa Public Health Ottawa Ontario Canada Health Statistics Division Statistics Canada Ottawa Ontario Canada University of Ottawa Laboratory for Applied Geomatics and GIS Science (LAGGISS) Department of Geography Ottawa Ontario Canada Children's Hospital of Eastern Ontario Healthy Active Living and Obesity Research Group Ottawa Ontario Canada University of Ottawa Faculty of Health Sciences School of Human Kinetics Ottawa Ontario Canada

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