| No. | date | topic | notes etc. |
| 1 | Jan 13 (Tu) | Course Overview Getting R and Matlab ready |
R,
Intr R, Intro to genome biology, Basic lab techiques, paper, homework assignmrnt 1 |
| 2 | Jan 15 (Tr) | Microarray technology, R | slides, short movie r-intro |
| 3 | Jan 20 (Tu) | Review of satistics 1 | slides |
| 4 | Jan 22 (Tr) | Review of satistics 2 | slides homework assignment 2 |
| 5 | Jan 27 (Tu) | student's presentation | papers [1],[2], [3] |
| 6 | Jan 29(Tr) | Pre-processing: cDNA microarrays | slides, lowess papers [1], [2] |
| 7 | Feb 3 (Tu) | Pre-processing: Affymetrix GeneChip arrays | slides papers [1], [2], [3] |
| 8 | Feb 5 (Tr) | Pre-processing with Bioconductor | slides,
Bioconductor-Overview, Bioconductor-URL homework assignment 3 |
| 9 | Feb 10 (Tu) | Multiple testing | slides papers [1], [2], [3] |
| 10 | Feb 12 (Tr) | Resampling and Bootstrap-1 | slides papers [1],[2], paper [3] |
| 11 | Feb 17 (Tu) | Resampling and Bootstrap-2 | slides |
| 12 | Feb 19 (Tr) | student's presentation and discussion about homework |
|
| 13 | Feb 24 (Tu) | Genomic data-mining methods 1 | slides |
| 14 | Feb 26 (Tr) | Genomic data-mining methods 2 | slides see above homework assignment 4 |
| 15 | March 2 (Tu) | Genomic data-mining methods 3 | slides |
| 16 | March 4 (Tr) | Genomic data-mining methods 4 | slides papers [1], [2], [3] |
| 17 | March 9 (Tu) | Genomic data-mining methods 5 | slides (updated) paper [1] |
| 18 | March 11 (Tr) | Genomic data-mining methods 6 |
slides paper [1] |
| 19 | March 16 (Tr) | Genomic data-mining methods 8 |
slides |
| 20 | March 18 (Tu) | Genomic data-mining methods 7 |
slides,
tutorial by Bernhard Schölkopf, (This tutorial is not included in exam, only for your reference) final project assignment see top of the page |
| 21 | March 23 (Tu) | Spring break, No class | |
| 22 | March 25 (Tr) | Spring break, No class | |
| 23 | March 30 (Tu) | Genomic data-mining methods 9 | slides (see above) |
| 24 | April 1 (Tu) | Genomic data-mining methods 10 | slides (see slides on Mar.18. slides updated after p44) |
| 25 | April 6 (Tu) | infer genetic network -1 | slides homework assignment 5 individual presentation date posted , see top of the page |
| 26 | April 8 (Tr) | infer genetic network -2 | slides (see above) |
| 27 | April 13 (Tu) | protein structure and function prediction |
slides |
| 28 | April 15 (Tr) | protein structure and function prediction-2 | slides |
| 29 | April 20 (Tu) | final project presentation | |
| 30 | April 22 (Tr) | final project presentation | |
| 31 | April 27 (Tr) | final project presentation | |
| 32 | April 29 (Tu) | Final Exam |