BIOINFORMATICS SEMINAR SERIES: FALL 2006
ST598B is a 1 credit seminar course (public is welcome) that meets
at 4:30pm on Tuesdays in Krannert (KRAN) G016.
If you would like your name added to the weekly mailing of this seminar
announcement, please send an e-mail request to RW Doerge: doerge@purdue.edu
Fall 2000 seminar series speakers
Spring 2001 seminar series speakers
Fall 2001 seminar series speakers
Spring 2002 seminar series speakers
Fall 2002 seminar series speakers
Spring 2003 seminar series speakers
Fall 2003 seminar series speakers
Spring 2004 seminar series speakers
Fall 2004 seminar series speakers
Spring 2005 seminar series speakers
Fall 2005 seminar series speakers
Spring 2006 seminar series speakers
FALL 2006 Schedule:
- Tuesday, August 22, 2006, 4:30pm, Krannert (KRAN) G016
- Dr. RW Doerge, Departments of Statistics and Agronomy,
- "This is an organizational meeting. All registered students must attend. If you need
a registration form signed, please bring it to class."
- Tuesday, August 29, 2006, 4:30pm, Krannert (KRAN) G016
- Dr. William Muir , Department of Animal Sciences, Purdue University
- "Comparison of the FDR, pFDR, and SAM for power
and error rates for analysis of microarray experiments"
- Associated reading:
- "Statistical significance for genomewide studies"
- "Significance analysis of microarrays applied to the
ionizing radiation response"
- "Controlling the false discovery rate: A pratical and powerful a
pproach to multiple testing"
- "SAS code for pFDR"
- "SAS code for FDR"
- "Storey link to additional reso
urces"
- "Link to Stanford SAM software"
- Tuesday, September 5, 2006, 4:30pm, Krannert (KRAN) G016
- No Seminar
- Tuesday, September 12, 2006, 4:30pm, Krannert (KRAN) G016
- Dr. RW Doerge , Departments of Statistics and Agronomy, Purdue University
- "Part 1: Functional Genomics of Quantitative Traits:
Expression Level
Polymorphisms of QTLs Affecting Disease Resistance Pathways in
Arabidopsis"
- Associated reading (pdf):
- R.W. Doerge, Z-B. Zeng and B.S. Weir. 1997. Statistical issues in the search for genes affecting quantitative traits in experimental populations. Statistical Science. 12(3):195-219.
- Tuesday, September 19, 2006, 4:30pm, Krannert (KRAN) G016
- Dr. RW Doerge , Departments of Statistics and Agronomy, Purdue University
- "Part 2: Functional Genomics of Quantitative Traits:
Expression Level
Polymorphisms of QTLs Affecting Disease Resistance Pathways in
Arabidopsis"
- Associated reading (pdf):
- This is a postscript file, please open accordingly, or go to Nature Genetics Reviews (via Purdue online journals):
R.W. Doerge. 2002. Mapping and analysis of quantitative trait loci in experimental populations. Nature Reviews Genetics 3:43-52.
- Tuesday, September 26, 2006, 4:30pm, Krannert (KRAN) G016
- Dr. Olga Vitek , Departments of Statistics and Computer Science, Purdue University
- "Inferential Approaches to Peptide Sequence Identification and
Quantitative Protein Profiling in Mass Spectrometry-Based Proteomics"
- Associated reading (pdf):
- J. Listgarten, A. Emili "Statistical and Computational Methods for
Comparative Proteomic Profiling Using Liquid Chromatography-Tandem Mass
Spectrometry", Molecular and Cellular Proteomics 4:419:434, 2005.
- A. Nesvizhskii, R. Aebersold "Analysis, statistical validation and
dissemination of large-scale proteomics datasets generated by tandem MS",
Drug Discovery Today 9:173-181, 2004.
- Tuesday, October 3, 2006, 4:30pm, Krannert (KRAN) G016
- Showcase of Potential Ph.D. Research Topics , Department of Statistics Professors (Ghosh, D. Zhang, M. Zhang, Wu, Vitek, Xie)
- "Each professor will present potential Ph.D. research topic(s) in which they are willing to work with a current Ph.D. Statistics student."
- Tuesday, October 10, 2006, 4:30pm, Krannert (KRAN) G016
- Fall Break. No Seminar.
- Tuesday, October 17, 2006, 4:30pm, Krannert (KRAN) G016
- Ms. Leah Wetherill, Department of Medical and Molecular Genetics, Indiana
University School of Medicine, Indianapolis, IN ,
- "Finding Genes Associated with Alcoholism: If Only It Were That Easy"
- Associated reading (pdf):
- Martin ER, Monks SA, Warren LL, Kaplan NL (2000) A test for linkage and association in general pedigrees: the pedigree disequilibrium test. Am J Hum Genet 67:146-154.
- Martin ER, Bass MP, Kaplan NL (2001) Letter to the Editor: Correcting for a potential bias in the pedigree disequilibrium test. Am J Hum Genet 68:1065-1067.
- Edenberg HJ, Xuei X, Chen HJ, Tian H, Flury-Wetherill L, Dick DM, Almasy L, Bierut L, Bucholz KK, Goate A, Hesselbrock V, Kuperman S, Nurnberger J, Porjesz B, Rice J, Schuckit M, Tischfield J, Beglieter H, Foroud T (2006) Association of alcohol dehydrogenase genes with alcohol dependence: a comprehensive analysis. Hum Mol Genet 15(9): 1539-1549.
- Tuesday, October 24, 2006, 4:30pm, Krannert (KRAN) G016
- Dr. Martina Muehlbach Bremer , Department of Statistics, Purdue University
- "Identifying Regulated Genes through the Correlation Structure of Time Dependent Microarray Data"
- Tuesday, October 31, 2006, 4:30pm, Krannert (KRAN) G016
- Dr. Dina St. Clair , Department of Plant Science, University of California, Davis
- "Global transcriptome variation in Arabidopsis thaliana"
- Associated reading: available online at Purdue e-journals
- 1.
West, M.A.L., K. Kim, D.J. Kliebenstein, H. van Leeuwen, R.W. Michelmore, R.W. Doerge, D.A. St.Clair. (2006) Global eQTL mapping reveals the complex genetic architecture of transcript level variation in Arabidopsis. Genetics (accepted pending revision).
- 2. West, M.A.L., H. van Leeuwen, A. Kozik, D.J. Kliebenstein, R.W. Doerge, D.A. St.Clair, R.W. Michelmore. (2006) High-density haplotyping with microarray-based expression and single feature polymorphism markers in Arabidopsis. Genome Research 16:787-795.
- 3. Kliebenstein, D.J., M.A.L. West, H. van Leeuwen, K. Kim, R.W. Doerge, R.W. Michelmore, D.A. St.Clair. (2006) Genomic survey of gene expression diversity in Arabidopsis thaliana. Genetics 172:1179-1189.
- 4. Kliebenstein, D.J., M.A.L. West, H. van Leeuwen, O. Loudet, R.W. Doerge, D.A. St.Clair. (2006) Identification of QTLs controlling gene expression networks defined a priori. BMC Bioinformatics 7:308 (doi10.1186/1471-2105-7-308).
- Tuesday, November 7, 2006, 4:30pm, Krannert (KRAN) G016
- Dr. Malgorzata Bogdan , Institute of Mathematics and Computer Science;
Wroclaw University of Technology, Poland
- "Locating quantitative trait loci with a modified version of BIC"
- Associated reading: GENETICS is available at Purdue e-journals.
- 1. M.Bogdan, J.K.Ghosh and R.W.Doerge, Modifying the Schwarz Bayesian Information
Criterion to Locate Multiple Interacting Quantitative Trait Loci, Genetics (2004) 167:
989-999.
- 2. A. Baierl, M. Bogdan, A. Frommlet and A. Futschik, On Locating Multiple Interacting
Quantitative Trait Loci in Intercross Designs, Genetics (2006) 173: 1693-1703.
- 3. Z.-B. Zeng, J. Liu, L. F. Stam, C.-H. Kao, J. M. Mercer, and C. C. Laurie,
Genetic Architecture of a Morphological Shape Difference Between Two Drosophila Species
Genetics (2000) 154: 299-310.
- Tuesday, November 14, 2006, 4:30pm, Krannert (KRAN) G016
- Dr. Ivan Baxter , Senior Research Associate,
Bindley Bioscience Center,
Purdue University
- "From Genome to Gene: Using an "-omic" Aproach to Identify Causal Loci"
- Associated reading: GENETICS is available at Purdue e-journals.
- 1. Lahner B, Gong J, Mahmoudian M, Smith EL, Abid KB, Rogers EE, Guerinot
ML, Harper JF, Ward JM, McIntyre L, Schroeder JI, Salt DE (2003) Genomic
scale profiling of nutrient and trace elements in Arabidopsis thaliana.
Nat Biotechnol 21: 1215-1221
- 2. Rus A, Baxter I, Muthukumar B, Gustin J, Lahner B, Yakubova E, Salt DE.*
**(2006) Natural Variants of At*/*HKT1*/* Enhance Na^+ Accumulation in
Two Wild Populations of Arabidopsis. PLOS Genetics*
- Tuesday, November 21, 2006, 4:30pm, Krannert (KRAN) G016
- No Seminar
- Tuesday, November 28, 2006, 4:30pm, Krannert (KRAN) G016
- Discussion with registered students about academics, working, the future, your worries/concerns/etc... Bring your hard questions...
- Thank you for a successful semester. There are no more seminars
this semester. See you in January!
Please contact
doerge@purdue.edu if there is a speaker you would
Like to invited for this series.