Genomics, Proteomics, and Systems Biology
Reading Schedule: Fall 2008

Tentative Schedule

Dates	Day	Chapter	Read Before Class	Discovery Questions
Aug 21	M	Intro.; email your thoughts	N. A.
Aug 23	W	1.1: What's wrong with my child?	ix - xiii & 1 - 9	8, 10, 12, 13, 14 + (MM 1 & 2)
Aug 25	F	1.2: What's wrong with my child?	9 - 20	17, 19, 20, 26, 27, 29, 31, 32
Aug 28	M	1.2: What's wrong with my child?	20 - 29	35,36,38,39,40,42,45,46
Aug 30	W	2.1: How are genomes sequenced?	34 - 45	5,8,9,(MM2.1:1,2,3),(MM2.2:1,2),12,15
Sep 1	F	2.1: cont.	45 - 59	(MM2.3:2,3),20,22,28,30,33,38
first draft	M	Pilot Web Page	Put it online	Due Monday Sep 4, 11:30 am
Sep 4	M	2.2: What have we learned from unicelluar genomes?	59 - 74	40,42,48,51,52,56,58,(MM2.4:1),64
Sep 6	W	2.3: What have we learned from multicelluar genomes?	90 - 109	82,87,88,(MM2.5:2),94,96
Sep 8	F	3.1: Comparative Genomics	114 - 123	4,5,6,8,14
Sep 11	M	3.2: Evolution of Genomes	126 - 138	21,23,24,29,32,34,35
revised page	W	First Web Page	Trait and Gene	Due Wed Sep 14, 2:00 pm
Sep 13	W	3.2 Human Evolution	138 - 145	38,39,41,42,43
Sep 15	F	3.3: Genomic Identifications	145 - 155	46,47,50,53,55,56
Sep 18	M	3.3: Genomic Identifications	155 - 162	58,59,61,62,64,65,67
Sep 20	W	3.4: Biomedical Genome Research	162 - 172	69,72,73,75,80,81
Sep 22	F	Buffer For First Exam
Sep 22	F	1st Exam	TAKE HOME	DUE Wed Sept. 27; 11:30 am
Sept 25	M	4.1: What drives environmental diversity?	178 - 186	No DQ's
Sep 27	W	EXAM RECOVERY	Turn In Exam
Sep 29	F	4.2: What are SNPs?	186 - 198	8,10,11,17,18,28,32,37,39
Oct 2	M	4.3: Is death a genetically determined trait?	198 - 203	40,42,43
Oct 4	W	4.4: What are the ethical implications?	203 - 214	48,52,(MM4.4:1,2),57,63,69
YFYG	F	Your Favorite Yeast Genes	one annotated & one not annotated	Due Fri. Oct 6, 5:00 pm
Oct 6	F	5: Why can't I lose weight?	219 - 231	2,9,14,20,22,27
Oct 9	M	Fall Break	ZZZZZZZ	No Class
Oct 11	W	6.1: What are DNA microarrays?	234 - 245	4,6,7,(MM6.3:2,3),9,10,11,12
Oct 13	F	6.1: Can chips reveal regulatory sequences?	245 - 254	17-21,25,26,31,34,35,44
Oct 16	M	6.2: Any alternative uses of chips?	254 - 261	45,51,54,55,56,61,66,74,76,77
Oct 18	W	7.1: Can microarrays diagnose cancer?	264 - 269	2,4,6,10,1215,19,20,23,24,26
YFYE	F	Your Favorite Yeast Expression	one annotated & one not annotated	Due Friday Oct 20, 2:00 pm
Oct 20	F	7.2: Are genomes stable?	270 - 276	31,32,34,35,36,41,42,45,46,
Oct 23	M	7.2: Can microarrays analyze our health?	276 - 282	53,54,56,58,62,63,67,69,72,77,79,80
Oct 25	W	Buffer for Second Exam
Oct 25	W	2nd Exam	TAKE HOME	DUE Mon. Oct. 30; 11:30 am
Oct 27	F	No Class - Exam Time		Presenting out of town
Oct 30	M	EXAM RECOVERY	Turn In Exam
Nov 1	W	8.1: What do all these proteins do?	286 - 295	2,4,9,10,12,13,18,20,23,24,25
Nov 3	F	8.2: Does a protein's shape reveal its function?	295 - 299	27,29,30,32
Nov 6	M	8.3: Which proteins interact with each other?	299 - 307	33,36,38,40,44
Nov 8	W	8.4: How do we measure and ID proteins?	307-19 + 323-25	47,48,(MM8.3:2),51,52,54,55,56,65,66
Nov 10	F	9: Why can't we cure more people?	331 - 340	7,9,10,14,(MM9.1:1,2),18,19,22,23
Nov 13	M	10.1: Are genes hardwired?	342 - 355	3,5,8,9,10,12
Nov 15	W	10.1: What controls amount, location and timing?	355 - 366	15,16,24,(MM10.1:1,3),25
YFYP	F	Your Favorite Yeast Protein	one annotated & one not annotated	Due Friday Nov 17, 2:00 pm
Nov 17	F	11.1: How do genes regulate each other?	370 - 378	1,2,3,5,6,7,8
Nov 20	M	11.1: How are memories formed?	378 - 391	9,13,14,17,19,21,25-27
Nov 22	W	Thanksgiving	Eat	No Class
Nov 24	F	Thanksgiving	Sleep	No Class
Nov 27	M	11.1: Can we learn about cancer through circuits?	391 - 394	30,31,32,33
Nov 29	W	11.2: Synthetic Biology	394 - 400	34,35,37,39,41,42,43
Dec 1	F	11.2: Synthetic cont.	400 - 407	44,48,52,53,55,57,58b&c
Dec 4	M	12: Can systems biology reveal new properties?	410 - 419	1,2,4,5,6,9
Dec 6	W	Final Exam Due Dec. 14, noon	Course Evaluation Fellowships	done!