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.

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 Bash shell text processing commands Classic shell scripting (online book) SQL Introduction Learn Python the Hard Way

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)