Genetics 211 Genomics

Course Schedule - Winter 2014

Tues 1/6 Course Overview (30 minutes)
Lecture #1 -- Sherlock: Whole Genome Sequencing  
Thurs 1/8 Discussion - Whole-Genome Sequence Assembly
Batzoglou, et al. (2002) ARACHNE: A Whole-Genome Shotgun Assembler. Genome Research, 12:177-189
Fri 1/9
Python - Data Types PS0 - Due 1/9/2015 at 9:00AM:
Tues 1/13 Lecture #2 -- Sherlock : TBA  
Thurs 1/15 Discussion - TBA
Fri 1/16
Python - Loops & Logic PS1 - Due 1/16/2015 at 9:00AM:
Tues 1/20 Lecture #3 -- Sherlock: TBA   
Thurs 1/22 Discussion - TBA
Fri 1/23
Python - Functions PS2 - Part 1 Due 1/23/2015 at 9:00AM:
Tues 1/27 Lecture #4 -- Salzman: RNA-seq   
Thurs 1/29 Discussion : TBA
Fri 1/30
Python - Pattern matching PS2 - Part 2 Due 1/30/2015 at 9:00AM:
Tues 2/3 Lecture #5 -- Snyder: TBA   
Thurs 2/5 Discussion - TBA
Fri 2/6
Python - File I/O & Code Modules PS3 - Part 1 Due 2/6/2015 at 9:00AM:
Tues 2/10 Lecture #6 -- Snyder: TBA  
Thurs 2/12 Discussion - TBA
Fri 2/13
Python - Object-Oriented Python PS3 - Part 2 Due 2/13/2015 at 9:00AM:
Tues 2/17 Lecture #7 -- Cherry: Sequence Comparison  
Thurs 2/19 Discussion - TBA
Fri 2/20
Python - Introduction to Biopython
PS4 - Part 1 Due 2/20/2015 at 9:00AM:
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Final Project Abstract - Due Monday 2/23/2015 at 9:00am:
Tues 2/24 Lecture #8 -- Snyder: TBA   
Thurs 2/26 Discussion Cancelled, prospective grad student interviews
Fri 2/27
Python - Cancelled, prospective grad student interviews
Tues 3/3 Lecture #9 -- Cherry : Functional & Manual Annotation  
Thurs 3/5 Discussion - TBA
Fri 3/6
Python - cgi & urllib2 PS4 - Part 2 Due 3/6/2015 at 9:00AM:
Tues 3/10 Lecture #10 -- Snyder: TBA  
Thurs 3/12 Discussion - TBA
Fri 3/13
Python - Miscellaneous and Python 3 Final Project - Due Sunday 3/15/2015 at noon

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