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BFB10 Biostatistical Foundations in Bioinformatics |
| BFB10 | Biostatistical Foundations in Bioinformatics |
| Mon, Nov 15th |
Day #1
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| 09:30 - 11:00 |
Descriptive Statistics Describing and summarizing data. Summary statistics and plots for univariate, bivariate and multivariate data. |
| 11:00 - 11:30 | Coffee Break |
| 11:30 - 12:30 | Practical: Introduction to R. Basic exploratory Statistics with R. |
| 12:30 - 14:00 | Lunch Break |
| 14:00 - 16:00 | Review of probability theory Probability, Random variables and their properties. Distributions. Independence and conditional probability. |
| 16:00 - 16:30 | Tea Break |
| 16:30 - 18:00 | Distributions in R: probabilities, densities, simulation. |
| Tue, Nov 16th |
Day #2
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| 09:30 - 11:00 |
Basics of statistical inference Sampling, Methods of estimation: maximum likelihood, Significance testing and confidence intervals. - Sampling and resampling in R. Basic confidence intervals and tests. |
| 11:00 - 11:30 | Coffee Break |
| 11:30 - 12:30 |
More on statistical inference The EM algorithm. Bayesian inference. - Introduction to Winbugs |
| 12:30 - 14:00 | Lunch Break |
| 14:00 - 16:00 |
Stochastic processes Stochastic processes in Biology: Poisson processes; Markov chains; hidden Markov models. |
| 16:00 - 16:30 | Tea Break |
| 16:30 - 18:00 |
Some probability models useful in Bioinformatics: Topology prediction of Transmembrane Proteins (with or without reentrant loops). Introduction to PROVID-TMHMM and TOP-MOD |
| Wed, Nov 17th |
Day #3
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| 09:30 - 11:00 |
High troughput data analysis Low-level analysis of Affymetrix and cDNA microarrays. Background, Normalization and Summarization. |
| 11:00 - 11:30 | Coffee Break |
| 11:30 - 12:30 |
Introduction to microarray data analysis with R. The Bioconductor project. |
| 12:30 - 14:00 | Lunch Break |
| 14:00 - 16:00 |
Statistical issues in high troughput data analysis Statistical tests for selecting differentially expressed genes. Classical and Bayesian approaches. Multiple Testing adjustments. |
| 16:00 - 16:30 | Tea Break |
| 16:30 - 18:00 | Practical exercises. |
| Thu, Nov 18th |
Day #4
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| 09:30 - 11:00 |
Examples of gene expression data analysis with R, dChip and BAMarray. |
| 11:00 - 11:30 | Coffee Break |
| 11:30 - 12:30 | Practical exercises. |
| 12:30 - 14:00 | Lunch Break |
| 14:00 - 16:00 |
Multivariate Statistical Methods for high throughput data analysis Visualization. Class discovery and class prediction. |
| 16:00 - 16:30 | Tea Break |
| 16:30 - 18:00 |
More examples in microarray data analysis. Practical exercises. Final wrap-up session |
| Course Homepage |
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Instituto Gulbenkian de Ciência, Apartado 14, 2781-901 Oeiras, Portugal Last updated: September 18th 2010 |