Course Description
Introduction to computational biology
through an informatic exploration of the human genome. Topics include:
genome sequencing (technologies, assembly, personalized sequencing);
functional landscape (genes, gene regulation, repeats, RNA genes,
epigenetics); genome evolution (comparative genomics, ultraconservation,
co-option). Additional topics may include population genetics,
personalized genomics, and ancient DNA. Course includes primers on
molecular biology, the UCSC Genome Browser, and text processing
languages. Guest lectures from genomic researchers.
Introductory Bio and CS Sessions
The following is a list of introductory
sessions for students unfamiliar with (or just wanting a refresher
lecture on) biology and computer science to the depth necessary to make
the course enjoyable. All sessions will take place in Beckman B-200
from 10:00am-11:00am.
Date | Subject |
9/27 | Introductory Biology Primer |
10/4 | UCSC Genome Browser Tools |
10/11 | Introduction to Text Processing |
Schedule
As the quarter
progresses, the following schedule will be updated accordingly. Please
check back often for the latest material. Homework related materials
require a SUNet ID and password for registered students. If you are
auditing the class and want access to these materials, please email the
staff mailing list.
Date | Title | HW | |
Related Material | |||
1 | 9/23 | Serafim: Introduction | |
2 | 9/25 | Serafim: DNA sequencing | |
3 | 9/30 | Gill: Genome Content - Protein Coding Genes | |
4 | 10/2 | Gill: RNA Genes, Gene Exp. Measurement & Enrichment Tests | HW1 Out |
5 | 10/7 | Gill: Transcription Regulation I | |
6 | 10/9 | Serafim: Human Population Genomics | |
7 | 10/14 | Serafim: Human Population Genomics II | |
8 | 10/16 | Gill: Transcription Regulation II | |
9 | 10/21 | Gill: Repetitive Elements | HW2 Out |
10 | 10/23 | Gill: Comparative Genomics I | Mid term feedback |
11 | 10/28 | Gill: Comparative Genomics II | |
12 | 10/30 | Serafim: Cancer Genomics | |
13 | 11/4 | Serafim: Human Population Genomics III | |
14 | 11/6 | Serafim: Multiple Sequence Alignment I | |
15 | 11/11 | Gill: Evolutionary Genomics | |
16 | 11/13 | Gill: Functional Genomics | |
17 | 11/18 | Serafim: Multiple Sequence Alignment II | |
18 | 11/20 | Serafim: Functional Elements in the Human Genome | Milestone report due Friday |
19 | 12/2 | Gill: Recapitulation | |
20 | 12/4 | Serafim+Gill+CAs: Project Presentations | (Lunch Provided) |