JSM 2016 Online Program

Sessions Were Renumbered as of May 19.

Legend:
CC-W = McCormick Place Convention Center, West Building,   CC-N = McCormick Place Convention Center, North Building
H = Hilton Chicago,   UC= Conference Chicago at University Center
* = applied session       ! = JSM meeting theme

Activity Details

33	Sun, 7/31/2016, 2:00 PM - 3:50 PM	CC-W177
Efficient Methods for Structured Large Genomics Data — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section , International Society for Bayesian Analysis (ISBA) , Section on Bayesian Statistical Science
Chair(s): Jing Ma, University of Pennsylvania
2:05 PM	Integrative Analysis of Transcriptomic and Metabolomic Data via Sparse Canonical Correlation Analysis with Incorporation of Biological Information — Sandra Safo, Emory University ; Qi Long, Emory University
2:20 PM	Statistical Inference in Partially Observed Stochastic Compartmental Models with Application to Cell Lineage Tracking of In-Vivo Hematopoiesis — Jason Xu, University of Washington ; Vladimir Minin, University of Washington ; Peter Guttorp, University of Washington ; Samson Koelle, University of Washington ; Janis Abkowitz, University of Washington ; Chuanfeng Wu, National Heart, Lung, and Blood Institute ; Cynthia Dunbar, National Heart, Lung, and Blood Institute
2:35 PM	An Empirical Bayes Approach to Adjust for Hidden Confounders in Large-Scale Gene Expression Studies — David Gerard, The University of Chicago ; Matthew Stephens, The University of Chicago
2:50 PM	Big Data Regression and Prediction for High-Throughput Genomic Data — Weiqiang Zhou, Johns Hopkins Bloomberg School of Public Health ; Ben Sherwood, Johns Hopkins Bloomberg School of Public Health ; Zhicheng Ji, Johns Hopkins Bloomberg School of Public Health ; Fang Du, Johns Hopkins Bloomberg School of Public Health ; Jiawei Bai, Johns Hopkins Bloomberg School of Public Health ; Hongkai Ji, Johns Hopkins Bloomberg School of Public Health
3:05 PM	Bayesian Nonlocal Prior-Based Gene Expression Data Analysis Using Chi-Square-Type Pathway Scores — Nilotpal Sanyal, Texas A&M University ; Wenyi Wang, MD Anderson Cancer Center ; Anirban Bhattacharya, Texas A&M University ; Valen E. Johnson, Texas A&M University
3:20 PM	Bayesian Large-Scale Multiple Regression with Summary Statistics from Genome-Wide Association Studies — Xiang Zhu, The University of Chicago ; Matthew Stephens, The University of Chicago
3:35 PM	RefCNV: Identification of Gene-Based Copy Number Variants Using Whole-Exome Sequencing — Lun-Ching Chang, National Cancer Institute ; Biswajit Das, Leidos Biomedical Research ; Chih-Jian Lih, Leidos Biomedical Research ; Corrine Camalier, Leidos Biomedical Research ; Paul Mcgregor, Leidos Biomedical Research ; Eric Polley, National Cancer Institute

37 * !	Sun, 7/31/2016, 2:00 PM - 3:50 PM	CC-W178a
Statistical and Computational Methods for Analysis of Rare Variant Association — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section , Royal Statistical Society
Chair(s): Yilong Zhang, New York University
2:20 PM	Statistical Methods for Rare Variant Test for Multiple Phenotypes — Diptavo Dutta ; Seunggeun Lee, University of Michigan
2:35 PM	Correcting for Population Stratification in Spatially Structured Populations for Sequencing Data — Ye Ting Du, Harvard T.H. Chan School of Public Health ; Xihong Lin, Harvard T.H. Chan School of Public Health
2:50 PM	Searching for Gene Sets with Mutually Exclusive Mutations — Paul Ginzberg, Imperial College London ; Federico Giorgi, Columbia University ; Andrea Califano, Columbia University
3:05 PM	Sparse Signal Detection in the Presence of Rare Variants and Binary Phenotype — Sixing Chen, Harvard ; Xihong Lin, Harvard T.H. Chan School of Public Health
3:20 PM	Detection of Associations Between a Set of Rare Variants and Multiple Continuous Phenotypes — Zhonghua Liu, Harvard ; Xihong Lin, Harvard T.H. Chan School of Public Health ; Zilin Li, Harvard T.H. Chan School of Public Health
3:35 PM	A Powerful Statistical Test for Rare Variant Associations in Pedigree Studies — Keng-Han Lin, University of Michigan ; Sebastian Zoellner, University of Michigan

55 *	Sun, 7/31/2016, 4:00 PM - 5:50 PM	CC-W196b
Recent Advances in Sequencing Association Studies and Rare-Variant Analysis for Complex Traits — Invited Papers
Section on Statistics in Genomics and Genetics
Organizer(s): Seunggeun Lee, University of Michigan
Chair(s): Xiaoquan Wen, University of Michigan
4:05 PM	Sequencing 10,000s of Human Genomes: Early Results, Opportunities, and Statistical Challenges — Gonçalo Abecasis, University of Michigan
4:30 PM	Detecting Signal Regions in Whole-Genome Association Studies — Xihong Lin, Harvard T.H. Chan School of Public Health ; Zilin Li, Harvard T.H. Chan School of Public Health
4:55 PM	Improving Power for Rare Variant Tests by Using External Control Samples While Mitigating for Possible Biases — Seunggeun Lee, University of Michigan
5:20 PM	A Spectral Approach for the Integration of Functional Genomics Annotations for Both Coding and Noncoding Sequence Variants — Iuliana Ionita-Laza, Columbia University ; Kenneth McCallum, Columbia University
5:45 PM	Floor Discussion

76 * !	Sun, 7/31/2016, 4:00 PM - 5:50 PM	CC-W196a
Network and Graphical Models for Analysis of Genomic Data — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section
Chair(s): Jiang Gui, Dartmouth Medical School
4:05 PM	Identification of Marginal Causal Relationships in Gene Networks from Observational and Interventional Expression Data — Andrea Rau, INRA ; Gilles Monneret, INRA/Universite Pierre et Marie Curie ; Florence Jaffrezic, INRA ; Gregory Nuel, Universite Pierre et Marie Curie
4:20 PM	Longitudinal Gaussian Graphical Models for Autism Risk Gene Detection — Kevin Lin, Carnegie Mellon University
4:35 PM	XTalk: A Path-Based Approach for Identifying Crosstalk Between Signaling Pathways — Allison Tegge ; T. M. Murali, Virginia Tech ; Nicholas Sharp, Virginia Tech
4:50 PM	Graphlet Screening for High-Dimensional Variable Selection — Qi Zhang, University of Nebraska - Lincoln ; Jiashun Jin, Carnegie Mellon University ; Cun-Hui Zhang, Rutgers University
5:05 PM	Pathway-Based Integrative Bayesian Modeling of Multi-Platform Genomics Data — Elizabeth McGuffey, U.S. Naval Academy ; Jeffrey S. Morris, MD Anderson Cancer Center ; Raymond Carroll, Texas A&M University ; Ganiraju C. Manyam, MD Anderson Cancer Center ; Veera Baladandayuthapani, MD Anderson Cancer Center
5:20 PM	Detecting Association to Precision Networks via Conditional Multi-Type Graphical Models — Yanming Li, University of Michigan ; Kevin He, University of Michigan ; Jian Kang, University of Michigan ; Hyokyoung (Grace) Hong, Michigan State University ; Ji Zhu, University of Michigan ; Yi Li, University of Michigan
5:35 PM	Network Analysis for Gene Signaling Pathways — Samir Lababidi, FDA ; Taxiarchis Botsis, FDA

213713	Sun, 7/31/2016, 6:00 PM - 7:30 PM	CC-W470b
Genomics and Genetics Business Meeting — Other Cmte/Business
Section on Statistics in Genomics and Genetics
Chair(s): Xihong Lin, Harvard T.H. Chan School of Public Health

118 *	Mon, 8/1/2016, 8:30 AM - 10:20 AM	CC-W185d
Challenges in Metagenomic Data Analysis: Reproducibility and Interpretability of Inferences on Microbial Community Composition and Dynamics — Topic Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section , Committee on Applied Statisticians
Organizer(s): Hector Corrada Bravo, University of Maryland
Chair(s): Jianxin Shi, National Cancer Institute
8:35 AM	Dimensional Reduction of Metagenomic Data with Ecological Equivalence — Senthilkumar Muthiah, University of Maryland ; Eric Slud, U.S. Census Bureau ; Mihai Pop, University of Maryland ; Hector Corrada Bravo, University of Maryland
8:55 AM	Multivariate Dimension-Reduction Methods for Microbiome Data Analysis — Kim-Anh Le Cao, University of Queensland
9:15 AM	Mediation Analysis of High-Dimensional Human Microbiome Data in the Longitudinal Study — Huilin Li , New York University Langone Medical Center ; Yilong Zhang, New York University ; Martin J. Blaser, New York University
9:35 AM	Floor Discussion

134 * !	Mon, 8/1/2016, 8:30 AM - 10:20 AM	CC-W186c
Genome-Wide Association Studies and Related Topics — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section
Chair(s): Pixu Shi
8:35 AM	Weighted False Discovery Rate Control in Large-Scale Multiple Testing — Pallavi Basu, University of Southern California
8:50 AM	Identifying SNP Interaction Patterns Using an Intensive Approach — Hui-Yi Lin, Louisiana State University Health Sciences Center ; Dung-Tsa Chen, Moffitt Cancer Center ; Po-Yu Huang, National Chung-Hsing University ; Yung-Hsin Liu, INC Research ; Chia-Ho Cheng, Moffitt Cancer Center ; Jong Park, Moffitt Cancer Center
9:05 AM	Leveraging Functional Annotations in Genetic Risk Prediction for Human Complex Diseases — Yiming Hu, Yale University ; Qiongshi Lu, Yale University ; Hongyu Zhao, Yale University
9:20 AM	Generalized Functional Linear Models for Family Sequencing Data — Sneha Jadhav ; Hira L. Koul, Michigan State University ; Qing Lu, Michigan State University
9:35 AM	A Graphical Model to Prioritizing GWAS Results by Integrating Pleiotropy — Dongjun Chung, Medical University of South Carolina ; Hang J. Kim, University of Cincinnati ; Hongyu Zhao, Yale University
9:50 AM	Singular Values, Association Between Asthma and Single Nucleotide Polymorphisms, and Population Genetics — Marepalli Rao, University of Cincinnati ; Michael B. Wathen, University of Cincinnati ; Koffi B. Wima, University of Cincinnati ; Mohammad Alfred Nobel Bhuiyan, University of Cincinnati
10:05 AM	A Phylogenetic Model for Association Mapping with Multiple Loci — Katherine Thompson, University of Kentucky

142 !	Mon, 8/1/2016, 10:30 AM - 12:20 PM	CC-W183a
The Extraordinary Impacts of Statistics in Genomics and Genetics — Invited Papers
Section on Statistics in Genomics and Genetics , Royal Statistical Society
Organizer(s): Hongzhe Li, University of Pennsylvania
Chair(s): Hongzhe Li, University of Pennsylvania
10:35 AM	Latent Variable Methods for the Analysis of Genomic Data — John D. Storey, Princeton
11:00 AM	Overcoming Bias and Batch Effects in RNAseq Data — Michael I. Love, Harvard T.H. Chan School of Public Health ; Rafael A. Irizarry, Dana-Farber Cancer Institute
11:25 AM	Testing High-Dimensional Differential Matrices, with Applications to Detecting Schizophrenia Genes — Kathryn Roeder, Carnegie Mellon University ; Lingxue Zhu, Carnegie Mellon University ; Jing Lei, Carnegie Mellon University
11:50 AM	Graph-Restricted Mixture Models — Michael Newton, University of Wisconsin - Madison ; Tien Vo, University of Wisconsin - Madison ; Vamsi Ithapu, University of Wisconsin - Madison ; Vikas Singh, University of Wisconsin - Madison
12:15 PM	Floor Discussion

252 * !	Mon, 8/1/2016, 2:00 PM - 3:50 PM	CC-W190b
Cancer Genomics and Tumor Sequencing — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section , International Chinese Statistical Association
Chair(s): Jingyang Zhang, Fred Hutchinson Cancer Research Center
2:05 PM	Modeling Multiple Primary Cancers Over Time Using a Novel Familywise Likelihood Under the Nonhomogeneous Poisson Process — Jialu Li, MD Anderson Cancer Center ; Seung Jun Shin, Korea University ; Wenyi Wang, MD Anderson Cancer Center
2:20 PM	Testing for Differentially Expressed Pathways from Within-Subject Matched Pairs of RNA-Seq Data Sets — Grant Schissler, Statistics GIDP ; Walter W. Piegorsch, University of Arizona ; Yves A. Lussier, University of Arizona
2:35 PM	Genomic Analysis with Common Binary Outcomes via Mediation — Sheila Gaynor, Harvard ; Xihong Lin, Harvard T.H. Chan School of Public Health
2:50 PM	Analysis of High-Throughput Drug Screening Data of Cancer Cell Lines — Hongmei Liu ; J. Sunil Rao, University of Miami
3:05 PM	Assessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolution by Next-Generation Sequencing — Yuchao Jiang, University of Pennsylvania ; Yu Qiu, University of Pennsylvania ; Andy J. Minn, University of Pennsylvania ; Nancy Zhang, University of Pennsylvania
3:20 PM	A Beta-Binomial Model to Compare Somatic Mutation Rates Between Groups of Cancer Patients — Hong Wang, University of Kentucky ; Yong Chen, University of Pennsylvania Perelman School of Medicine ; Jinze Liu, University of Kentucky ; Heidi Weiss, University of Kentucky ; Susanne M. Arnold, University of Kentucky ; Aronld Stromberg, University of Kentucky ; Chi Wang, University of Kentucky
3:35 PM	Cell Type-Specific Deconvolution of Heterogeneous Tumor Samples with Immune Infiltration Using Expression Data — Zeya Wang, Rice University ; Jeffrey S. Morris, MD Anderson Cancer Center ; Jaeil Ahn, Georgetown University ; Svitlana Tyekucheva, Harvard ; Bo Li, Harvard ; Wei Lu, MD Anderson Cancer Center ; Ximing Tang, MD Anderson Cancer Center ; Ignacio I. Wistuba, MD Anderson Cancer Center ; Chris Holmes, University of Oxford ; Wenyi Wang, MD Anderson Cancer Center

318 * !	Tue, 8/2/2016, 8:30 AM - 10:20 AM	CC-W196a
Novel Approaches for Metagenomic, Phylogenetic, and Epigenetic Analysis — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section
Chair(s): Michael Sohn, University of Pennsylvania
8:35 AM	Estimating Cell-Type-Specific Associations from Whole Blood Methylation — Richard Barfield ; Xihong Lin, Harvard T.H. Chan School of Public Health
8:50 AM	A Robust Approach for Identifying Differentially Abundant Features in Metagenomic Samples — Lingling An, University of Arizona ; Michael Sohn, University of Pennsylvania ; Ruofei Du, University of Arizona
9:05 AM	Metabolomic Data Analysis: Data Preprocessing — Lauren McIntyre, University of Florida ; Rainey Patterson, University of Florida ; Timothy Garrett, University of Florida ; Alison Morse, University of Florida ; Alexander Kirpich, University of Florida ; Justin Fear, National Institutes of Health ; Miguel Ibarra, University of Florida ; Oleksandr Moskalenko, University of Florida ; Jeremy Koelmel, University of Florida
9:20 AM	Ultra-High-Dimensional Variable Selection with Application to Normative Aging Study: DNA Methylation and Metabolic Syndrome — Grace Yoon ; Yinan Zheng, Northwestern University ; Zhou Zhang, Northwestern University ; Haixiang Zhang, Tianjin University ; Brian Joyce, Northwestern University ; Wei Zhang, Northwestern University ; Wenxin Jiang, Northwestern University ; Lifang Hou, Northwestern University ; Lei Liu, Northwestern University ; Tao Gao, Northwestern University ; Andrea Baccarelli, Harvard ; Joel Schwartz, Harvard ; Pantel S. Vokonas, Boston University
9:35 AM	Statistical Issues in the Forensic Analysis of DNA Data — Alan Izenman, Temple University
9:50 AM	Statistical Models for Proteomic Screening and Analysis of Active Enzymes — William Forrest, Genentech
10:05 AM	Quantifying and Mitigating the Effect of Preferential Sampling on Phylodynamic Inference — Michael Karcher ; Julia Palacios, Harvard ; Trevor Bedford, Fred Hutchinson Cancer Research Center ; Marc Adam Suchard, University of California at Los Angeles ; Vladimir Minin, University of Washington

347 * !	Tue, 8/2/2016, 10:30 AM - 12:20 PM	CC-W192b
Advances in Statistical Methods for Systems Biology — Topic Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section , Committee on Applied Statisticians
Organizer(s): Li Ma, Duke University
Chair(s): Barbara E. Engelhardt, Princeton
10:35 AM	A Big Table for Gene Regulatory Analysis — Wing Hung Wong, Stanford University
10:55 AM	Statistical Models for Single Cell RNA RNA Analysis — Nancy Zhang, University of Pennsylvania ; Cheng Jia, University of Pennsylvania ; Yuchao Jiang, University of Pennsylvania ; Mingyao Li, University of Pennsylvania
11:15 AM	A Bayesian Nonparametric Analysis of Heterogeneous Data on Microbial Communities — Sergio Bacallado
11:35 AM	Analysis of Distributional Variation: A Multi-Resolution Scanning Approach with Applications to DNase-Seq Analysis — Li Ma, Duke University
11:55 AM	Bayesian Nonparametric Multiple Testing for the Analysis of Microbiome Data — Michele Guindani
12:15 PM	Floor Discussion

376	Tue, 8/2/2016, 10:30 AM - 12:20 PM	CC-Hall F1 West
Contributed Poster Presentations: Section on Statistics in Genomics and Genetics — Contributed Poster Presentations
Section on Statistics in Genomics and Genetics
Chair(s): Genevera Allen, Rice University
45:	High-Dimensional Cox Regression for Genome-Wide Assessment of the Prognostic Benefit of Somatic Mutations in Ovarian Cancer — Brandon Butcher, University of Iowa ; Patrick Breheny, University of Iowa ; Donghai Dai, University of Iowa
46:	Application of Kappa Agreement Statistic as a Diagnostic Tool in Genetic Data Modeling — Kelly Cho, MAVERIC/BWH/HMS ; Hongsheng Wu, MAVERIC/WIT ; Robert Lew, MAVERIC/BU
47:	A Model-Free Method for Detecting Disease Association Signals with Multiple Genetic Variants and Covariates — Jen-Yu Lee, Feng Chia University
48:	A Stability Analysis of Sparse K-Means — Abraham Apfel, University of Pittsburgh ; Stewart J. Anderson, University of Pittsburgh
49:	Clustering of Omics Data in Biological Systems — Min Wang, Mathematical Biosciences Institute
50:	Optimal Burden Test for Association Between Quantitative Traits and Genotype Data with Bidirectional Correlations — Ting Guan ; Xiaowei Wu, Virginia Polytechnic Institute and State University
51:	BANFF: An R Package for BAyesian Network Feature Finder — Zhou Lan, North Carolina State University ; Yize Zhao, Statistical and Applied Mathematical Sciences Institute ; Jian Kang, University of Michigan ; Tianwei Yu, Emory University
52:	A Classification Model for Detecting De Novo Mutation in Primary Amenorrhea Probands — Fuchen Liu, Carnegie Mellon University ; Kathryn Roeder, Carnegie Mellon University ; Bernie Devlin, University of Pittsburgh School of Medicine ; Aleksandar Rajkovic, University of Pittsburgh
53:	For the Microbiome, Zeroes Are Definitely of Non-Zero Importance — Pippa Simpson, Medical College of Wisconsin ; Yumei Cao, Medical College of Wisconsin ; Bevan Emma Huang, Janssen R&D ; Jethro Johnson, Jackson Labs ; Jeffrey B. Schwimmer, University of California at San Diego ; mary holtz, Medical College of Wisconsin ; george weinstock, The Jackson Laboratory for Genomic Medicine ; Erica Weinstock, The Jackson Laboratory for Genomic Medicine ; nita salzman, Medical College of Wisconsin
54:	Using Estimates of Population-Level Relatedness to Improve Pedigree-Based Linkage Analysis — Fiona Grimson, University of Washington
55:	A Conditional Autoregressive Model for Genetic Association Analysis of Sequencing Data — Xiaoxi Shen ; Qing Lu, Michigan State University
56:	A MAD-Bayes Algorithm for State-Space Inference and Clustering with Application to Querying Large Collections of ChIP-Seq Data Sets — Kailei Chen
57:	Challenges of Predicting Individual Risk in Genome-Wide Association Studies — Agnes Martine Nielsen, Technical University of Denmark ; Helle Krogh Pedersen, Technical University of Denmark ; Ramneek Gupta, Technical University of Denmark ; Line Harder Clemmensen, Technical University of Denmark
58:	Multicategory Classification Using High-Dimensional Predictors with Applications to Studying Effects of Rice Genome — Arkaprava Roy, North Carolina State University ; Subhashis Ghoshal, North Carolina State University
59:	Characterizing the Vaginal Microbiome Based on a Large Cross-Sectional Study — Victoria Pokhilko
60:	The Estimation of the Association of Rare Variants and Disease in Random Effect Model — Jin-Hua Chen
61:	Mathematical Modeling of Population Bottlenecks in Next-Generation Sequencing — Rebecca Rothwell ; Sebastian Zoellner, University of Michigan ; Narisu Narisu, National Institutes of Health ; Mike Erdos, National Institutes of Health ; Maria Eriksson, Karolinska Institutet
62:	A Score Statistic for Testing Variance Components in the Shared Random Effects Setting with Applications to a Complex Mouse Study — James Xenakis, The University of North Carolina at Chapel Hill ; Fei Zou, University of Florida
63:	Regularized Efficient Score Estimation and Testing Approach in Low-Dimensional and High-Dimensional GLM — Lixi Yu, University of Iowa ; Jian Huang, University of Iowa

405 * !	Tue, 8/2/2016, 2:00 PM - 3:50 PM	CC-W196c
Statistical Challenges in the Analysis of Single-Cell RNA-Seq Data — Invited Papers
Section on Statistics in Genomics and Genetics , International Chinese Statistical Association
Organizer(s): Rafael A. Irizarry, Dana-Farber Cancer Institute
Chair(s): Rafael A. Irizarry, Dana-Farber Cancer Institute
2:05 PM	MAST: A Novel Statistical Framework for Assessing Transcriptional Changes and Characterizing Heterogeneity in Single-Cell RNA-Seq Data — Raphael Gottardo, Fred Hutchinson Cancer Research Center
2:55 PM	Learning the 'Metadata' of the Cell: Inferring Cellular Phenotypes with Single-Cell Genomics — Rahul Satija, New York Genome Center
3:20 PM	On the Widespread and Critical Impact of Systematic Bias and Batch Effects in Single-Cell RNA-Seq Data — Stephanie C. Hicks, Dana-Farber Cancer Institute/Harvard T.H. Chan School of Public Health ; Mingxiang Teng, Dana-Farber Cancer Institute/Harvard T.H. Chan School of Public Health ; Rafael A. Irizarry, Dana-Farber Cancer Institute
3:45 PM	Floor Discussion

434 * !	Tue, 8/2/2016, 2:00 PM - 3:50 PM	CC-W194a
Statistical Modeling of RNA-Seq Data — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section
Chair(s): Yuchao Jiang, University of Pennsylvania
2:05 PM	Detection of Differential Gene Expressions from Tumor RNA-Seq and Copy Number Data in the Presence of Tumor Heterogeneity — Jaeil Ahn, Georgetown University ; Wenyi Wang, MD Anderson Cancer Center ; Ying Yuan, MD Anderson Cancer Center
2:20 PM	TSCAN: Pseudo-Time Reconstruction and Evaluation in Single-Cell RNA-Seq Analysis — Zhicheng Ji, Johns Hopkins Bloomberg School of Public Health ; Hongkai Ji, Johns Hopkins Bloomberg School of Public Health
2:35 PM	NMFP: A Non-Negative Matrix Factorization--Based Preselection Method to Increase Accuracy of Identifying mRNA Isoforms from RNA-Seq Data — Yuting Ye, University of California at Berkeley ; Jingyi (Jessica) Li, University of California at Los Angeles
2:50 PM	A Statistical Method for Cross-Species Analysis of RNA-Seq Data — Yered Pita-Juarez, Harvard ; Rafael A. Irizarry, Dana-Farber Cancer Institute ; Michael I. Love, Harvard T.H. Chan School of Public Health
3:05 PM	Model-Based Clustering and Visualization of RNA-Seq Data — Kushal Dey, The University of Chicago ; Matthew Stephens, The University of Chicago
3:20 PM	Modeling the Ordering of Cell-Cycle Phase in Single-Cell RNA-Seq Data — Chiaowen Joyce Hsiao, The University of Chicago ; Kushal Dey, The University of Chicago ; PoYuan Tung, The University of Chicago ; Yoav Gilad, The University of Chicago ; Matthew Stephens, The University of Chicago
3:35 PM	Nonparametric Hypothesis Testing of the Human Microbiome Using Evolutionary Trees — Martina Mincheva, Temple University ; Hongzhe Li, University of Pennsylvania ; Jun Chen, Mayo Clinic

469 * !	Wed, 8/3/2016, 8:30 AM - 10:20 AM	CC-W179b
Current Trends and Innovations in Bioinformatics: A SAMSI Program — Invited Papers
Section on Statistics in Genomics and Genetics
Organizer(s): Sujit K. Ghosh, Statistical and Applied Mathematical Sciences Institute
Chair(s): Sujit K. Ghosh, North Carolina State University
8:35 AM	Statistical Methods for Genomic Data Integration — Veera Baladandayuthapani, MD Anderson Cancer Center
9:00 AM	Statistical Inference for Chromatin 3D Structure — Shili Lin, The Ohio State University
9:25 AM	State Space Models for the NGS Pipeline — Karin S. Dorman, Iowa State University ; Xin Yin, Iowa State University ; Vahid Noroozi, Iowa State University ; Aditya Ramamoorthy, Iowa State University
9:50 AM	Effects of Filtering and Normalization on Ordination Methods for Vaginal Microbiome Data — Snehalata Huzurbazar, University of Wyoming ; Ekaterina Smirnova, University of Wyoming
10:15 AM	Floor Discussion

491	Wed, 8/3/2016, 8:30 AM - 10:20 AM	CC-W181b
SPEED: Advances in Statistical Genetics — Contributed Speed
Section on Statistics in Genomics and Genetics
Chair(s): Marianne Huebner, Michigan State University
8:35 AM	Variable Selection in Untargeted Metabolomics Data Analysis — Alexander Kirpich, University of Florida ; Matthew Merritt, University of Florida ; George Michailidis, University of Florida ; Lauren McIntyre, University of Florida
8:40 AM	Predicting Human and Animal Protein Subcellular Locations — Sepideh Khavari ; James Munyon, Bowling Green State University ; Xiangjia Min, Youngstown State University ; Guang-Hwa Chang, Youngstown State University
8:45 AM	ASAFE: Ancestry-Specific Allele Frequency Estimation — Qian Zhang, University of Washington ; Brian Browning, University of Washington ; Sharon Browning, University of Washington
8:50 AM	Robust Modeling of EQTL Effect Sizes — John Palowitch ; Andrey Shabalin, Virginia Collegiate University ; Fred Wright, North Carolina State University ; Andrew Nobel, The University of North Carolina at Chapel Hill ; Yihui Zhou, North Carolina State University
8:55 AM	Pathway-Structured Predictive Model for Cancer Survival Prediction — Xinyan Zhang, University of Alabama at Birmingham ; Yan Li, University of Alabama at Birmingham ; Omotomilayo F. Akinyemiju, University of Alabama at Birmingham ; Akinyemi I. Ojesina, University of Alabama at Birmingham ; Phillip Buckhaults, University of South Carolina ; Bo Xu, Southern Research Institute ; Nengjun Yi, University of Alabama at Birmingham
9:00 AM	A New Method to Construct Large Gene Regulatory Networks Using Genetical Genomics Data — Chen Chen, Purdue University ; Min Zhang, Purdue University ; Dabao Zhang, Purdue University
9:05 AM	A Pseudotime-Series--Based Analysis for Single-Cell Sequencing Data Reveals Directed Associations Between Gene Expression Data — Alicia Taylor Specht, University of Notre Dame ; Jun Li, University of Notre Dame
9:10 AM	Stochastic Network Models with Applications to 'Omics Data — Thomas Bartlett, University College London
9:15 AM	Multiple Imputation for Non-Detects in QPCR — Valeriia Sherina, University of Rochester ; Matthew Nicholson McCall, University of Rochester
9:30 AM	SCDC: A Statistical Approach for Reducing Nuisance Variability Due to Oscillating Genes in Unsynchronized Single-Cell RNA-Seq Experiments — Jeea Choi, University of Wisconsin - Madison ; Christina Kendziorski, University of Wisconsin ; Ning Leng, Thomson Lab at the Morgridge Institute for Research ; Li-Fang Chu, Thomson Lab at the Morgridge Institute for Research ; Ron Stewart, Thomson Lab at the Morgridge Institute for Research ; James Thomson, Morgridge Institute for Research
9:40 AM	Accounting for Correlations in Genetic Enrichment Analysis for Improved Interpretation of Genome-Scale Data — Duo Jiang, Oregon State University ; Bin Zhuo, Oregon State University
9:45 AM	Hybrid-Network: A Bayesian Approach — Demba Fofana ; Ebenezer Olusegun George, University of Memphis ; Dale Bowman, University of Memphis
9:50 AM	Clustering Functional Data from High-Throughput Sequencing Assays — Emery Goossens ; Heejung Shim, Purdue University
9:55 AM	Sparse, Efficient Phylogenetic Factor Analysis — Max Tolkoff ; Marc Adam Suchard, University of California at Los Angeles
10:00 AM	Comparison of the Bayesian and Frequentist Estimation of the Inbreeding Coefficient — Zhenyi Xue, Becton, Dickinson, and Company
10:05 AM	Floor Discussion

501 * !	Wed, 8/3/2016, 8:30 AM - 10:20 AM	CC-W178b
Analysis of Gene Expression, Genomics, and Next-Generation Sequencing Data — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section
Chair(s): Cheng Jia, University of Pennsylvania
8:35 AM	Efficient Bayesian Model-Based Clustering Method for Identification of Transcription Factor--Binding Sites for ChIA-PET Data — Ioannis Vardaxis, Norwegian University of Science and Technology ; Bo Henry Lindqvist, Norwegian University of Science and Technology ; Finn Drabløs, Norwegian University of Science and Technology ; Morten Beck Rye, Norwegian University of Science and Technology
8:50 AM	Adaptive Models for Profiling Tumor Evolution and Drug Response in Cancer Cell Subpopulations — Evan Johnson, Boston University
9:05 AM	Detecting EQTLs: A Fast Analysis Protocol Using High-Dimensional Sequencing Data — Kai Kammers, Johns Hopkins Bloomberg School of Public Health ; Ingo Ruczinski, Johns Hopkins Bloomberg School of Public Health ; Margaret A. Taub, Johns Hopkins Bloomberg School of Public Health ; Joshua Martin, The GeneSTAR Program ; Lisa R. Yanek, The GeneSTAR Program ; Lewis Becker, The GeneSTAR Program ; Rasika A. Mathias, The GeneSTAR Program ; Jeffrey Leek, Johns Hopkins Bloomberg School of Public Health
9:20 AM	Analysis of Paired Mitochondrial DNA Data Set by Using Bivariate Poisson Models — Pei-Fang Su, National Cheng Kung University ; Yan Guo, Vanderbilt University ; John D. Boice, National Council on Radiation Protection and Measurements ; Yu Shyr, Vanderbilt University
9:35 AM	BatchQC: Interactive Software Framework for Evaluating Sample and Batch Effects in Genomic Data — Solaiappan Manimaran, Boston University ; Evan Johnson, Boston University
9:50 AM	Dirichlet Process Mixture Model for High-Dimensional Gene Expression Data — Eric Mittman, Iowa State University ; Jarad Niemi, Iowa State University
10:05 AM	A Dirichlet Process Mixture Model for Clustering Longitudinal Gene Expression Data — Jiehuan Sun, Yale University ; Jose D. Herazo-Maya, Yale School of Medicine ; Naftali Kaminski, Yale School of Medicine ; Hongyu Zhao, Yale University ; Joshua Warren, Yale University

545 * !	Wed, 8/3/2016, 10:30 AM - 12:20 PM	CC-W184a
Variable Selection and Risk Prediction in Genomics — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section
Chair(s): Simon Vandekar, University of Pennsylvania
10:35 AM	Multi-Tuning Parameter Lasso for Sample Classification — Kimberly Siegmund, University of Southern California ; Jie Liu, University of Southern California ; Juan Pablo Lewinger, University of Southern California
10:50 AM	A Permanental Approach in Predicting the Relapse Risk of Breast Cancer — Haipeng Liu, University of Illinois at Chicago ; Jie Yang, University of Illinois at Chicago
11:05 AM	Expandable Factor Analysis — Sanvesh Srivastava, University of Iowa ; Barbara E. Engelhardt, Princeton ; David Dunson, Duke University
11:20 AM	Random Forest for Paired Data — Matthew Mitchell, Metabolon ; Jacob Edward Wulff, Metabolon ; Philip Ross Gunst, Metabolon
11:35 AM	Predicting Pathologic Complete Response Using Clinical and Microarray Data in the Presence of a Dominating Class — Jonathon Abernethy, University of Illinois at Chicago ; Jie Yang, University of Illinois at Chicago
11:50 AM	Analysis of Ultra-High-Dimensional Polycystic Ovary Syndrome Genome Using DC-RR — Jill Lundell, Utah State University ; Guifang Fu, Utah State University

560	Wed, 8/3/2016, 10:30 AM - 11:15 AM	CC-Hall F1 West
SPEED: Advances in Statistical Genetics, Part 2A — Contributed Poster Presentations
Section on Statistics in Genomics and Genetics
Chair(s): Genevera Allen, Rice University
11:	Variable Selection in Untargeted Metabolomics Data Analysis — Alexander Kirpich, University of Florida ; Matthew Merritt, University of Florida ; George Michailidis, University of Florida ; Lauren McIntyre, University of Florida
12:	Predicting Human and Animal Protein Subcellular Locations — Sepideh Khavari ; James Munyon, Bowling Green State University ; Xiangjia Min, Youngstown State University ; Guang-Hwa Chang, Youngstown State University
13:	ASAFE: Ancestry-Specific Allele Frequency Estimation — Qian Zhang, University of Washington ; Brian Browning, University of Washington ; Sharon Browning, University of Washington
14:	Robust Modeling of EQTL Effect Sizes — John Palowitch ; Andrey Shabalin, Virginia Collegiate University ; Fred Wright, North Carolina State University ; Andrew Nobel, The University of North Carolina at Chapel Hill ; Yihui Zhou, North Carolina State University
15:	Pathway-Structured Predictive Model for Cancer Survival Prediction — Xinyan Zhang, University of Alabama at Birmingham ; Yan Li, University of Alabama at Birmingham ; Omotomilayo F. Akinyemiju, University of Alabama at Birmingham ; Akinyemi I. Ojesina, University of Alabama at Birmingham ; Phillip Buckhaults, University of South Carolina ; Bo Xu, Southern Research Institute ; Nengjun Yi, University of Alabama at Birmingham
16:	A New Method to Construct Large Gene Regulatory Networks Using Genetical Genomics Data — Chen Chen, Purdue University ; Min Zhang, Purdue University ; Dabao Zhang, Purdue University
17:	A Pseudotime-Series--Based Analysis for Single-Cell Sequencing Data Reveals Directed Associations Between Gene Expression Data — Alicia Taylor Specht, University of Notre Dame ; Jun Li, University of Notre Dame
18:	Stochastic Network Models with Applications to 'Omics Data — Thomas Bartlett, University College London
19:	Multiple Imputation for Non-Detects in QPCR — Valeriia Sherina, University of Rochester ; Matthew Nicholson McCall, University of Rochester
The oral portion will take place during Session 213150

563	Wed, 8/3/2016, 11:35 AM - 12:20 PM	CC-Hall F1 West
SPEED: Advances in Statistical Genetics, Part 2B — Contributed Poster Presentations
Section on Statistics in Genomics and Genetics
Chair(s): Genevera Allen, Rice University
11:	SCDC: A Statistical Approach for Reducing Nuisance Variability Due to Oscillating Genes in Unsynchronized Single-Cell RNA-Seq Experiments — Jeea Choi, University of Wisconsin - Madison ; Christina Kendziorski, University of Wisconsin ; Ning Leng, Thomson Lab at the Morgridge Institute for Research ; Li-Fang Chu, Thomson Lab at the Morgridge Institute for Research ; Ron Stewart, Thomson Lab at the Morgridge Institute for Research ; James Thomson, Morgridge Institute for Research
13:	Accounting for Correlations in Genetic Enrichment Analysis for Improved Interpretation of Genome-Scale Data — Duo Jiang, Oregon State University ; Bin Zhuo, Oregon State University
14:	Hybrid-Network: A Bayesian Approach — Demba Fofana ; Ebenezer Olusegun George, University of Memphis ; Dale Bowman, University of Memphis
15:	Clustering Functional Data from High-Throughput Sequencing Assays — Emery Goossens ; Heejung Shim, Purdue University
16:	Sparse, Efficient Phylogenetic Factor Analysis — Max Tolkoff ; Marc Adam Suchard, University of California at Los Angeles
17:	Comparison of the Bayesian and Frequentist Estimation of the Inbreeding Coefficient — Zhenyi Xue, Becton, Dickinson, and Company
The oral portion will take place during Session 213150

593 * !	Wed, 8/3/2016, 2:00 PM - 3:50 PM	CC-W187b
Batch Effects in Genomics Data — Topic Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section
Organizer(s): Johann Gagnon-Bartsch, University of Michigan
Chair(s): Johann Gagnon-Bartsch, University of Michigan
2:05 PM	Batch Effects in Network Inference — Claire Ruberman
2:25 PM	Confounder Adjustment in Multiple Hypotheses Testing — Jingshu Wang ; Qingyuan Zhao, Stanford University
2:45 PM	Correction for Confounding Factors in Genome and Epigenome-Wide Association Studies — Jennifer Listgarten, Microsoft Research
3:05 PM	Accounting for Sample Quality and Other Unwanted Effects in Single-Cell RNA-Seq Data — Davide Risso, University of California at Berkeley ; Michael Cole, University of California at Berkeley ; John Ngai, University of California at Berkeley ; Nir Yosef, University of California at Berkeley ; Sandrine Dudoit, University of California at Berkeley
3:25 PM	Batch Effects in Genomics Data — Florian Buettner ; Oliver Stegle, EMBL-European Bioinformatics Institute
3:45 PM	Floor Discussion

657 * !	Thu, 8/4/2016, 8:30 AM - 10:20 AM	CC-W185d
Statistical Methods for Integration of Omics Data — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section
Chair(s): Xinglei Chai, University of Pennsylvania
8:35 AM	An Analysis of Variation-Based Procedure for PCA on Multiple Groups — Zi Yang, University of Michigan ; George Michailidis, University of Florida
8:50 AM	Quadratically Regularized Functional Canonical Correlation Analysis and Its Application to Genetic Pleiotropic Analysis of Multiple Phenotypes — Nan Lin ; Yun Zhu, Tulane University ; Fen Peng, The University of Texas Health Science Center at Houston ; Jinying Zhao, Tulane University ; Momiao Xiong, The University of Texas Health Science Center at Houston
9:05 AM	Locally Adaptive Bayesian Nonparametric Inference for Phylodynamics — James R. Faulkner, University of Washington ; Vladimir Minin, University of Washington
9:20 AM	Improved Environmental Modeling in Statistical Genetics and Genomics — Claus Ekstrom, University of Copenhagen
9:35 AM	The Functional False Discovery Rate Methodology and Applications to Genomics — Xiongzhi Chen, Princeton ; David G. Robinson, Stack Overflow ; John D. Storey, Princeton
9:50 AM	Floor Discussion

703 * !	Thu, 8/4/2016, 10:30 AM - 12:20 PM	CC-W183c
Novel Approaches for Large-Scale Genetic Association Studies — Contributed Papers
Section on Statistics in Genomics and Genetics , Biopharmaceutical Section
Chair(s): Weiqiang Zhou, Johns Hopkins Bloomberg School of Public Health
10:35 AM	SNP-Set Tests Using Generalized Berk-Jones Statistics in Genetic Association Studies — Ryan Sun, Harvard ; Xihong Lin, Harvard T.H. Chan School of Public Health
10:50 AM	A Genomically Informed High-Dimensional Predictor for Microbial Community Metabolic Profiles — Himel Mallick, Harvard ; Eric Franzosa, Harvard ; Lauren Mclver, Harvard ; Soumya Banerjee, Harvard ; Alexandra Sirota-Madi, Broad Institute ; Aleksandar Kostic, Broad Institute ; Clary B. Clish, Broad Institute ; Hera Vlamakis, Broad Institute ; Ramnik Xavier, Broad Institute ; Curtis Huttenhower, Harvard
11:05 AM	Multiplicity-Adjusted Evidence Weights for Characterizing Associations of Phenotypes with Genotypes — Wenjian Bi ; Stanley Pounds, St. Jude Children's Research Hospital ; Guolian Kang, St. Jude Children's Research Hospital
11:20 AM	A Clustering Algorithm for Human Genetic Data — Jae Brodsky, Thermo Fisher Scientific ; Teresa Webster, Thermo Fisher Scientific ; Dorothy Oliver, Thermo Fisher Scientific ; Jeremy Gollub, Thermo Fisher Scientific ; Barry Eynon, Thermo Fisher Scientific
11:35 AM	Integrated Analysis of Cell Survival Data with Family-Based Genetic Studies to Treat Neurodegenerative Diseases — Daisy Philtron, Penn State University
12:05 PM	Modeling Maternal-Offspring Gene-Gene Interactions at Multiple Loci Using the Quantitative-MFG Test with an Application to Human Birth Weight — Michelle M. Clark, University of California at Los Angeles ; Olympe Chazara, University of Cambridge ; Eric M. Sobel, University of California at Los Angeles ; Ashley Moffett, University of Cambridge ; Janet S. Sinsheimer, University of California at Los Angeles

JSM 2016 Online Program

Activity Details

ASA Meetings Department

Share