STAT 598B is a 1 credit seminar course (public is welcome)
4:30pm on Tuesdays in PHYS 223

Past Seminars (scroll down for current)
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  • Fall 2010 seminar series speakers
  • Spring 2011 seminar series speakers
  • Fall 2011 seminar series speakers
  • Spring 2012 Schedule:

    Tuesday, January 10, 2012, 4:30pm, PHYS 223
    RW Doerge, Department of Statistics and Department of Agronomy, Purdue University
    This is an organizational meeting. All registered students must attend. If you need a registration form signed, please bring it to class.

    Tuesday, January 17, 2012, 4:30pm, PHYS 223
    No Seminar

    Tuesday, January 24, 2012, 4:30pm, PHYS 223
    Jyothi Thimmapura, Bioinformatics Core Director; Cyber Center, Discovery Park, Purdue University
    "Bioinformatics Core Facility at Purdue University"

    Associated reading:
    1. Lewitter, F., Rebhan, M., Richter, B. and Sexton, D. 2009. The Need for Centralization of Computational Biology Resources. PLoS Comput Biol. 5(6): e1000372.
    2. Lewitter, F. and Rebhan, M. 2009. Establishing a Successful Bioinformatics Core Facility Team. PLoS Comput Biol. 5(6):e1000368.
    3. Richter, B. and Sexton, D. 2009. Managing and Analyzing Next-Generation Sequence Data. PLoS Comput Biol. 5(6): e1000369

    Tuesday, January 31, 2012, 4:30pm, PHYS 223
    Yu (Michael) Zhu, Department of Statistics, Purdue University
    "Using Finite Poisson Mixture Models for RNA-Seq Data Analysis and Transcript Expression Level Quantification "

    Associated reading:
    Ming Hu. Yu Zhu, Jeremy M.G. Taylor, Jun S. Liu, Zhaohui S. Qui. 2011. Using Poisson mixed-effects model to quantify transcript-level gene expression in RNA-Seq. Bioinformatics. 28, 1: 63-68.

    Tuesday, February 7, 2012, 4:30pm, PHYS 223
    Brian Dilkes, Department of Horticulture and Landscape Architecture, Purdue University
    "Part 1: Bioinformatics for Next Generation Genetics"

    Associated reading:
    1. Author suggested YouTube video (read abstract, then video). http: //

    2. Austin et al. 2011. Next-generation mapping of Arabidopsis genes. The Plant Journal (2011) 67: 715-725.

    Tuesday, February 14, 2012, 4:30pm, PHYS 223
    Elizabeth Buescher, Department of Horticulture and Landscape Architecture
    "Part 2: "Cloning Genes Using Next Generation Sequencing"

    Associated reading:
    iSHOREmap: Simultaneous Mapping and Mutation Identification by Deep Sequencing. 2009. Nature Methods 6, 550-551.

    Tuesday, February 21, 2012, 4:30pm, PHYS 223
    Malgorzata (Gosia) Bogdan, Malgorzata (Gosia) Bogdan, Politechnika Wroclawska, Instytut Matematyki i Informatyki, Wroclaw, Poland
    "Logic regression for localizing interacting quantitative trait loci"

    Associated reading:
    1. Kooperberg C. and I. Ruczinski, 2005 Identifying Interacting SNPs Using Monte Carlo Logic Regression. Genetic Epidemiology 28:157-170.
    2. Ruczinski, I., C. Kooperberg, M. LeBlanc, 2003 Logic regression. J. Comput. Graphical Statist. 12(3):474-511.
    3. Schwender, H. and K. Ickstadt, 2008 Identification of SNP interactions using logic regression. Biostatistics 9:187-198.

    Tuesday, February 28, 2012, 4:30pm, PHYS 223
    Karen Kafadar, Chair & Rudy Professor of Statistics; Department of Statistics, Indiana University, Bloomington, IN
    "Gene expression in Beattles tissue"

    Associated reading:
    1. K. Kafadar and T. Phang. 2003. Transformations, Background Estimation, and Process Effects in the Statistical Analysis of Microarrays, Computational Statistics & Data Analysis 44(1-2), 313-338.

    2. Armin P. Moczek and Lisa M. Nagy. 2005. Diverse developmental mechanisms contribute to different levels of diversity in horned beetles. EVOLUTION & DEVELOPMENT 7:3, 175-185

    Tuesday, March 6, 2012, 4:30pm, PHYS 223
    No Seminar

    Tuesday, March 13, 2012, 4:30pm, PHYS 223
    Spring Break

    Tuesday, March 20, 2012, 4:30pm, PHYS 223
    Glen DePalma, Department of Statistics, Purdue University
    "Disk Diffusion Breakpoint Determination for Antimicrobial Susceptibility Testing"

    Associated reading:
    B.A. Craig. 2000. Modeling Approach to Diameter Breakpoint Determination. Diagnostic Microbiology and Infectious Disease 36.3:193-202.

    Tuesday, March 27, 2012, 4:30pm, PHYS 223
    Yaomin Xu, Cleveland Clinic, Cleveland, OH
    "DPT Approach: A New Strategy for Differential Analysis of Multiple Enrichment-based High-throughput Sequencing Profiles"

    Associated reading:
    Yaomin Xu, Bo Hu, Ae-Jin Choi, et al. 2011. Unique DNA methylome profiles in CpG island methylator phenotype colon cancers. Genome Research. doi:10.1101/gr.122788.111

    Tuesday, April 3, 2012, 4:30pm, PHYS 223
    Danni Yu, Department of Statistics, Purdue University
    "On estimating dispersion in Negative Binomial models for RNA-seq experiments with small sample size"

    Associated reading:
    S. Anders and W. Huber. 2010. Differential expression analysis for sequence count data. Genome Biology 2010, 11:R106.

    Tuesday, April 10, 2012, 4:30pm, PHYS 223
    Mi-Youn Brusniak, Institute for Systems Biology, Seattle, WA
    "Design and development of open source software for discovery and validation of biomarkers"

    Associated reading:
    Mi-Youn Brusniak et al. 2008. Corra: Computational framework and tools for LC-MS discovery and targeted mass spectrometry-based proteomics. BMC Bioinformatics 9:542.

    Tuesday, April 17, 2012, 4:30pm, PHYS 223
    Stanley Pounds, Department of Biostatistics, St. Jude Children's Research Hospital; Memphis, TN
    "A Genomic Random Interval Model for Functional Analysis of Genomic Lesion Data"

    Associated reading:
    Zhang et al. 2012. The genetic basis of early T-cell precursor acute lymphoblastic leukaemia. Nature. 481:157-163.

    Tuesday, April 24, 2012, 4:30pm, PHYS 223
    No Seminar

    The Bioinformatics Seminar is over for the semester. Thank you and see you Fall 2012!!!

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    Please contact if there is a speaker (including yourself) you would like to invite for this series, or if you would like to be added to the weekly email list.