LMU, Department of Statistics, Summer
2006:
Korbinian
Strimmer
Statistics and Computational Biology


First meeting: 
Friday 28 April 2006,
11:15am.

Presentations: 
Session A: 9 June 2006
Session B: 23 June 2006
Session C: 7 July 2006
Session D: 14 July 2006
(Friday afternoon, 26pm). 
Place: 
Seminar room, Dept. of Statistics, Ludwigstr.
33. 
Registration: 
Send email to Korbinian
Strimmer. 


Overview:
In this seminar we discuss challenges and problems in
the statistical modeling and inference of complex
highdimensional dynamical systems. The main topics
are:
 Highdimensional models for complex dynamic systems
(time series models, graphical models, stochastic
differential equations etc.),
 statistical approaches for their efficient
(regularized) inference and model selection, and
 application to biological data (mostly related to
systems biology).
See the PDF flyer and the
detailed reading list for
further information.


Prerequisites and Requirements:
Knowledge of multivariate analysis, time series and some
bits of Bayesian inference and penalized likelihood
inference is advantageous.
In order to obtain a certificate ("Schein") you need
to
 present a talk (45 mins) on the chosen topic
("Referat"),
 give a short talk (10 mins) on somebody else's topic
("Koreferat"),
 hand in a written expose ("Ausarbeitung") about your
topic (1015 pages),
 write all slides in English (preferentially using the
LaTeX "beamer"
class),
 attend at all sessions, and
 actively participate in the discussion following each
talk.


Schedule and Program:
Click on the name of the main speaker for download of the slides!
Session A: Regularized inference (9 June
2006):
Session B: Multiple testing and model selection (23
June 2006):
Main Speaker 
CoSpeaker 
Topic 
Materials 
Susanne Sax 
Ewan Donnachie 
Local fdr theory 
Papers 5 and 6 
 
 
Largescale differential expression 
Paper 7 
Elisabeth Gnatowski 
Katharina Schneider 
FDR and model selection 
Paper 8 
Session C: Dynamic models (7 July 2006):
Main Speaker 
CoSpeaker 
Topic 
Materials 
Katharina Schneider 
Susanne Sax 
Inference of highdimensional VAR model 
Paper 9 
Jean Hausser 
 
Statespace models inferred by variational
Bayes 
Paper 10 
Verena Zuber 
Daniela Birkel 
Random walk and diffusion models 
Paper 11 including supplements 1, 2, 3, and 4 
Session D: Graphical models (14 July 2006):
Main Speaker 
CoSpeaker 
Topic 
Materials 
Sebastian Petry 
Simon Rückinger 
Graphical models for time series data 
Paper 12 
 
 
Constructing largescale graphical models 
Paper 13 
Ewan Donnachie 
Christoph Knappik 
Spirtes PC algorithm 
Paper 14 


References:
 Efron, B., and C. Morris. 1975. Data analysis using
Stein's estimator and its generalizations. JASA
70:311319.
 Friedman, J.H. 1989. Regularized discriminant
analysis. JASA 84:165175.
 Tibshirani, R, et al. 2002. Diagnosis of multiple
cancer types by shrunken centroids of gene
expression. PNAS 99:65676572.
 Hastie, T, and R. Tibshirani. 2004. Efficient quadratic
regularization for expression arrays. Biostatistics
5:329340.
 Efron, B. 2004. Largescale simultaneous
hypothesis testing: the choice of a nullhypothesis.
JASA 99:96104.
 Efron, B. 2005. Local false discovery rates.
Preprint.
 Lönnstedt, I., and T. Britton. 2005. Hierarchical Bayes
models for cDNA microarray gene expression.
Biostatistics 6:279291.
 Gosh, D., W. Chen, and T. Raguhathan. 2004. The false discovery rate: a
variable selection procedure. Preprint.
 Ni, S. and D. Sun. 2005. Bayesian
estimates for vector autoregressive models. J.
Business. Economic Statistics. 23:105117
 Beal, M.J., F. Falciani, Z. Gharamani, C. Rangel, and
D. Wild. 2005. A
Bayesian approach to reconstructing genetic regulatory
networks with hidden factors. Bioinformatics
21:349356
 Brockmann, D., L. Hufnagel, and T. Geisel. 2006.
The scaling
laws of human travel. Nature 439:462465.
 Bach, F. R., and M. I. Jordan. 2004. Learning graphical models
for stationary time series. IEEE Transactions on
Signal Processing 52:21892199.
 Jones, B., C. Carvalho, A. Dobra, C. Hans, C. Carter,
and M. West. 2005. Experiments in stochastic
computation for highdimensional graphical models.
Statistical Science 20:388400
 Kalisch, M, and P. Bühlmann. 2006. Estimating
highdimensional directed acyclic graphs with the
PCalgorithm. Preprint.


Internet resources:
Further links regarding systems biology:


Last
modified:
July 10, 2006
