BIRS Workshop
Statistical Science for Genome Biology

The main objective for this workshop is to facilitate the development and dissemination of statistical methods for the analysis of genomic data. Methodological topics of interest include: cluster analysis, graph theory, image analysis, model selection, multiple testing, prediction, statistical computing. Biological applications to be discussed include: gene annotation, genetic mapping, microarray data analysis, nucleotide and protein sequence analysis.

BIRS Group Photo

Other photos

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Program

Day 1 - Sunday, August 15
    Prediction, model selection, cluster analysis
Day 2 - Monday, August 16
    Statistical computing
Day 3 - Tuesday, August 17
    Multiple testing, differential gene expression
Day 4 - Wednesday, August 18
    Integrated data analysis: Microarray data analysis, nucleotide and protein sequence analysis, genetic mapping
Day 5 - Thursday, August 19
    Experimental design and pre-processing in microarray experiments
Notes

Shedule: Word    PDF

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Confirmed Participants

Invited Speakers

Poster Session

Software Demo Session

General Information on BIRS

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Program

Day 1 - Sunday, August 15
Prediction, model selection, cluster analysis

7:00-8:45:	Continental Breakfast
8:45-9:00:	Andrea Lundquist: Introduction and Welcome to BIRS
9:00-10:15:	Mark van der Laan: Loss Based Cross-Validated Deletion/Substitution/Addition Algorithms in Learning: Applications in Genomics and Epidemiology.
10:15-10:45:	Coffee Break
10:45-11:45:	Peter Bühlmann: Graphical Modeling for Many Variables, and an Application to Genetic Regulatory Subnetworks.
11:45-13:15:	Buffet Lunch
13:15-14:15:	Ingo Ruczinski: Logic Regression in SNP association studies.
14:15-14:45:	Coffee Break
14:45-15:45:	Blythe Durbin: Optimizing Neural Network Architecture Using the Deletion/Substitution/Addition Algorithm.
15:45-16:15:	Discussion moderated by Jane Fridlyand
17:30-19:30:	Buffet Dinner
20:00-21:30:	Evening Poster Session

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Day 2 - Monday, August 16
Statistical computing

7:00-9:00:	Continental Breakfast
9:00-10:15:	Robert Gentleman: Bioconductor: An Overview and New Challenges.
10:15-10:45:	Coffee Break
10:45-11:45:	John Quackenbush
11:45-13:15:	Buffet Lunch
13:15-14:15:	Vincent Carey: Semantic web concepts and tools for bioinformatics.
14:15-14:45:	Coffee Break
14:45-15:45:	Duncan Temple Lang
15:45-16:15:	Discussion moderated by Thomas Lumley
17:30-19:30:	Buffet Dinner
20:00-21:30:	Evening Software Demo Session

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Day 3 - Tuesday, August 17
Multiple testing, differential gene expression

7:00-9:00:	Continental Breakfast
9:00-10:15:	Katherine Pollard: Multiple hypothesis testing for high dimensional biological data.
10:15-10:45:	Coffee Break
10:45-11:45:	Michael Newton
11:45-12:30:	Uri Keich: Another look at an ancient problem: finding the p-value of the llr statistic for multinomial distribution.
12:30-12:45:	Group Photo
12:45-13:30:	Buffet Lunch
13:30-17:30:	Free Afternoon
17:30-19:30:	Buffet Dinner

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Day 4 - Wednesday, August 18
Integrated data analysis: Microarray data analysis, nucleotide and protein sequence analysis, genetic mapping

7:00-9:00:	Continental Breakfast
9:00- 9:45:	Lior Pachter: Efficient Algorithms for Bayesian Approaches to Sequence Alignment.
9:45-10:30:	David Allison: Inference & Epistemology in High Dimensional Biology.
10:30-11:00:	Coffee Break
11:00-11:45:	Sündüz Keles: Multiple Testing Methods For ChIP-Chip High Density Oligonucleotide Array  Data.
11:45-13:15:	Buffet Lunch
13:15-14:00:	Rafal Kustra: Using GeneOntology structure and annotations in microarray analysis.
14:00-14:45:	Shelley Bull: Improving the Reliability of Results from Genome-Wide Studies.
14:45-15:15:	Coffee Break
15:15-16:00:	Alan Hubbard: A combination of gene expression and proteomic data in brain tissue samples of Alzheimer patients:  using multiple testing and clustering on to find subsets of diseased subjects with anomalous gene/protein expressions.
16:00-16:30:	Discussion moderated by Jenny Bryan
17:30-19:30:	Buffet Dinner

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Day 5 - Thursday, August 19
Experimental design and pre-processing in microarray experiments

7:00-9:00:	Continental Breakfast
9:00- 9:45:	Susan Holmes: Statistics of Microarray Data for Understanding the Immune System and Cancer.
9:45-10:30:	Christina Kendziorski: To Pool or Not to Pool: A Question of Microarray Experimental Design.
10:30-11:00:	Coffee Break
11:00-11:45:	David Rocke: Variability and Data Transformation for Gene Expression, Proteomics, and Metabolomics Data.
11:45-12:00:	Closing remarks - Organizers
12:00-13:30:	Buffet Lunch

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Notes

• Lectures: Main lecture hall, Max Bell 159.
• All talks at least one hour in length should include 10 minutes for questions; shorter talks should include 5 minutes for questions.
• The three 1h 15min talks (Days 1, 2, and 3) should use some of the extra time for overview/introduction.
• Continental Breakfast: 2nd floor lounge, Corbett Hall.
• Buffet Lunch: Donald Cameron Hall.
• Buffet Dinner: Donald Cameron Hall.
• Coffee Break: 2nd floor lounge, Corbett Hall.

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Invited Speakers

David Allison (confirmed)
Peter Bühlmann (confirmed)
Shelley Bull (confirmed)
Vincent Carey (confirmed)
Blythe Durbin (confirmed)
Robert Gentleman (confirmed)
Susan Holmes (confirmed)
Alan Hubbard (confirmed)
Uri Keich (confirmed)
Sündüz Keles (confirmed)
Christina Kendziorski (confirmed)
Rafal Kustra (confirmed)
Mark van der Laan (confirmed)
Michael Newton (confirmed)
Lior Pachter (confirmed)
Katherine Pollard (confirmed)
John Quackenbush (confirmed)
David Rocke (confirmed)
Ingo Ruczinski (confirmed)
Duncan Temple Lang (confirmed)

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