| 8 Nov. Wednesday | ||
|---|---|---|
| 9:00 | Introduction and Overview | Pearson |
| 9:30 | Protein Evolution and Sequence Similarity Searching PDF | Pearson |
| 1:30 | Workshop I - Similarity searching and statistics | |
| 3:30 | Discussion - Workshop I | |
| 4:00 | Algorithms for Biological Sequence Comparison PDF | Pearson |
| 5:00 | Wine and Cheese Reception | |
| 7:30 | Statistics of Sequence Similarity Scores | Altschul |
| 9 Nov. Thursday | ||
| 9:00 | Iterated protein database searches with PSI-BLAST | Altschul |
| 11:00 | Workshop II - BLAST/PSI-Blast | |
| 1:30 | Discussion - Workshop II | |
| 2:00 | Approaches to Multiple Sequence Alignment | Smith |
| References | ||
| Handout: Multiple Sequence Alignment -- Online Resources | ||
| 4:00 | Workshop III - Multiple Sequence Alignment | |
| 7:30 | Hidden Markov Models and Protein Profiles | Pearson |
| 9:00 | Workshop IV - Searching with HMMs | |
| Challenging Problems (due Tuesday morning, Nov. 14) | ||
| 10 Nov. Friday | ||
| 9:00 | Discussion - Workshop III, IV | |
| 9:30 | An introduction to the Gene Ontology | Blake |
| 11:00 | Workshop V - Gene Ontologies | |
| 1:30 | NCBI Resources for Bioinformatics and Computational Biology | Sayers |
| 3:00 | Workshop VI - Exploring NCBI databases | |
| 4:30 | Finding Consensus Sites PDF | Pearson |
| 7:30 | Discussion - Workshop VI | |
| 8:00 | The ENSEMBL Database of Genomes | Fernandez |
| 11 Nov. Saturday | ||
| 9:00 | Comparative Genomics I - Tools for Comparative Genomics | Hardison |
| 10:30 | Workshop VII - Ensembl ENSEMBL site PDF | |
| 1:30 | Discussion - Workshop VII | |
| 2:00 | Workshop VIII - Comparative Genomics I | |
| 3:30 | BIOMART and Genome Computation | Fernandez |
| 7:30 | Discussion - Workshop VIII | |
| 8:00 | Workshop IX - Using BIOMART BioMart link | |
| Mid-term Exam | ||
| 12 Nov. Sunday | ||
| 9:00 | Discussion - Workshop IX | |
| 9:30 | Panel Discussion - Comparative Genomics and Genome Databases | |
| 11:00 | Genome Computation and Gene Regulation | Hardison/Taylor |
| 1:30 | Discussion - Mid-term exam | |
| 2:30 | Workshop X - Consensus Patterns | |
| 3:30 | Workshop XI - Computing Gene Regulation | |
| 5:00 | Discussion - Workshops X, XI | |
| 6:00 | Banquet | |
| 13 Nov. Monday | ||
| 9:00 | NCBI Genome Resources | Sayers |
| 10:30 | Workshop XII - NCBI Genome Workshop | |
| 1:30 | Discussion - Workshop XII | |
| 2:00 | Alignment algorithms - Large Scale Alignment | Pearson |
| 3:30 | CSHL Tour - Grace Auditorium | |
| 4:30 | Workshop XIII - Large Scale Alignment | |
| 8:00 | Final Problem set | |
| 14 Nov. Tuesday | ||
| 8:30 | Project reports/Final exam Review/Discussion | |
| 11:30 | Farewell | |