| 2 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 | Workshop I - Problem discussion | |
| 4:00 | Algorithms for Biological Sequence Comparison | Pearson |
| 5:00 | Wine and Cheese Reception | |
| 7:30 | Statistics of Sequence Similarity Scores | Altschul |
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| 3 Nov. Thursday | ||
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| 9:00 | Approaches to Multiple Sequence Alignment | Smith |
| Multiple alignment resources | ||
| 11:00 | Workshop II: Multiple Sequence Alignment | |
| 1:30 | Problem Review | |
| 2:00 | Iterated protein database searches with PSI-BLAST | Altschul |
| 3:30 | Workshop III: BLAST/PSI-Blast workshop | |
| 7:30 | Problem Discussion | |
| 8:00 | Biological Sequence Comparison - Algorithms and Scoring Matrices [PDF] | Pearson |
| Practice alignment | ||
| 4 Nov. Friday | ||
| 9:00 | Hidden Markov Models and Protein Profiles PDF | Pearson |
| 10:30 | Workshop IV: Multiple Sequence Alignment, HMMs | |
| 11:00 | Finding Consensus Sites PDF | Pearson |
| 1:30 | NCBI Resources for Bioinformatics and Computational Biology | Cooper |
| 3:00 | Workshop V: Exploring NCBI databases | |
| 7:30 | Problem Review | |
| 8:00 | Genome Annotation/Sequence Ontologies/Gene Ontologies pdf | Yandell |
| 10:00 | Mid-term Exam | |
| 5 Nov. Saturday | ||
| 9:00 | Mid-term exam discussion | |
| 10:00 | Comparative Genomics I - Tools for Comparative Genomics | Hardison |
| 1:30 | NCBI Genome Resources pdf | Cooper |
| 3:00 | Workshop V: NCBI Genome Workshop | |
| 7:30 | Problem Review | |
| 8:00 | Large Scale Computation on Genomes -- I pdf | Yandell |
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| 6 Nov. Sunday | ||
| 9:00 | Workshop VI - Comparative Genomics I | |
| 10:30 | Genome Computation and Gene Regulation | Hardison |
| 1:00 | Workshop - Genome Computation II | |
| 2:30 | Alignment algorithms - Large Scale Alignment PDF | Pearson |
| 4:00 | Workshop IX - Large Scale Alignment | |
| 6:00 | Banquet | |
| 7 Nov. Monday | ||
| 9:00 | Comparative Genome Databases/Ensmart | Pearson |
| 10:30 | The Reactome Pathway Database | D'Eustachio |
| 1:30 | Reactome Workshop | |
| 3:00 | CSHL Tour - Grace Auditorium | |
| 4:00 | Workshops Consensus Sites Ensembl/Ensmart exercises | |
| 8:00 | Final Exam/Final Problem set | |
| 8 Nov. Tuesday | ||
| 8:30 | Project reports/Final exam Review/Discussion | |
| 11:30 | Farewell | |