| Topic |
Date |
Remarks |
| Background and Intro to Python |
08/31/10 |
Basic molecular biology Intro to Python |
| Input and output, lists, and control structures | 09/02/10 |
See previous slides HW 1 |
| If-else statements | 09/07/10 |
See slides from first lecture HW 2 |
| For and while loops | 09/09/10 |
See slides from first lecture HW 3 |
| More loops |
09/14/10 |
HW 4 |
| More loops |
09/16/10 |
HW 5 Codon to amino acid map |
| Functions |
09/21/10 |
HW 6 |
| Alignments |
09/23/10 |
Hands-on bioinformatics exercise |
| Alignments |
09/28/10 |
|
| Review |
09/30/10 |
HW 6 solution |
| First mid-term |
10/05/10 |
|
| First mid-term solution |
10/07/10 |
HW 7 |
| Translating DNA into protein |
10/12/10 |
HW 8 |
| Scoring a sequence alignment | 10/14/10 |
HW 9 HW 8 solution |
| Sequence length statistics and translating DNA into
protein |
10/19/10 |
HW 10 |
| Sequence length statistics |
10/21/10 |
Practice problem set 1 HW 11 |
| Scoring a sequence alignment |
10/26/10 | Sequence alignment HW 12 |
| Scoring a sequence alignment |
10/28/10 |
HW 13 |
| Detecting duplicates in a dataset |
11/02/10 | |
| Review for second exam |
11/04/10 |
|
| Second exam |
11/09/10 |
|
| Scoring a sequence alignment | 11/11/10 |
Practice problem number 9 HW 14 |
| Second exam solution |
11/16/10 | HW 15 |
| Conserved columns in a multiple alignment |
11/18/10 |
Trypsin alignment in ClustalW format Trypsin alignment in FASTA HW 16 |
| Conserved columns in a multiple alignment | 11/23/10 | HW 17 |
| Conserved columns in a multiple alignment (class cancelled) | 11/30/10 | |
| Conserved columns in a multiple alignment | 12/02/10 | HW 18 Extra Credit |
| Converting between different data formats | 12/07/10 |
Practice problem number 10 Practice problem number 11 Practice problem number 12 |
| Review for final in PC Mall 36 from 1 to 2:30 | 12/09/10 | Final review sheet Practice problem 10 solution Practice problem 12 solution Homework 18 solution |
| Final exam | 12/15/10 |
