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-302 (the lecture room) from 10:00am-11:00am.

Date Subject
9/30 Introductory Biology Primer
10/7 Introduction to Text Processing
10/14 UCSC Genome Browser Tools

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.

19/26Gill: Introduction 
29/28Serafim: DNA Sequencing Part I 
310/3Serafim: DNA Sequencing Part II 
410/5Gill: Human Genomic VariationHW1 out
510/10Gill: Genome Size, Repeats & Genes 
610/12Gill: Genome Evolution, Chromosomal Mutations, Paralogy & Orthology, Chains & Nets 
710/17Gill: Chains & Nets, Genome Reconstruction, Conservation 
810/19Serafim: Human Population Genomics IHW2 out
910/24Serafim: Human Population Genomics II 
1010/26Serafim: Cancer Genomics 
1110/31Gill: Conservation & Non-Coding RNAsHalfway Feedback
1211/2Gill: Gene RegulationProject out
HW2 Due 11/4
1311/7Gill: GREAT.stanford.edu & The search for what makes us human 
1411/9Serafim: Sequencing extinct human ancestors I 
1511/14Serafim: Sequencing extinct human ancestors II 
1611/16Serafim: Batzoglou Lab ProjectsProject milestone (Monday, 11/21)
1711/28Serafim/Gill: Guest #1 
1811/30Serafim/Gill: Guest #2 
1912/5Serafim/Gill: Guest #3 
2012/7Serafim+Gill+CAs: Project Presentations