Bi8: Intro to Molecular Bio

Lecture Outline

Lec #	Date	Topic	Problem Set	Lecturer	Reading
1	Th, Jan 5	The genome: codes, organization, expression vs. inheritance		EVR	Ch.1, Ch.4: 197-207 & 245-end
2	Tu, Jan 10	Nucleic acid structures: chemistry, space, time (evolution)		EVR	Ch. 4: pp. 195-207, 245-260; Ch. 6 pp. 329-333; and panel 2-6
		“Bootcamps”: molecular biology techniques & interpretation
3	Th, Jan 12	How do we know what we know? Nucleic acid technologies	PS #1 out, due back Jan 19	EVR	Ch. 8: 532-552
4	Tu, Jan 17	RNA transcription and splicing		EVR	Ch. 6: pp. 329-366
5	Th, Jan 19	Protein structure: motifs and domains		EVR	Ch. 3
6	Tu, Jan 24	Making proteins from genes: mRNA & translation	PS #2 out, due back Jan 31	EVR	Ch. 6: pp. 366-387
7	Th, Jan 26	Quantitating biological interactions and reactions		EVR	Ch. 3: panel 3-3
8	Tu, Jan 31	Components of transcriptional regulatory machines: bacterial modes of regulation, part 1		EVR	Ch. 7: pp. 411-439
9	Th, Feb 2	Bacterial modes of regulation, part 2		EVR	Yanofsky
	Th, Feb 2	Review/open questions(notes obout cis-trans tests)		EVR, TAs
	Fri, Feb 3	Midterms out
10	Tu, Feb 7	Protein/DNA interactions and transcriptional triggering in eukaryotes		EVR	Calculations of transcription factor binding
	Tu, Feb 7	Midterms due in class *to be graded by Feb 11*
11	Th, Feb 9	Epigenetics and gene regulation:the problem of transcription factor binding in vivo		EVR	Alberts Ch.4 pp.208-244; N. Heintzman, … B. Ren, Nature Genetics 2007 Lin et al., Nature Immunology, 2010 , Borok et al.
12	Tu, Feb 14	Signal-dependence, higher order combinatorial action, overcoming epigenetic barriers & TF binding		EVR	Yuh et al, Maier et al.
13	Th, Feb 16	Developmental gene networks	PS #3 out, due back Feb 23	EVR	Stathopoulos, Levine; Davidson; Ochoa-Espinosa et al.
14	Tu, Feb 21	RNA as a regulatory molecule: miRNA & silencing ncRNAs		EVR	Ch. 7: pp. 493-7 ; Lee et al. Djuranovic et al 2011
15	Th, Feb 23	RNA world: structure, enzymatics and possible origins		EVR	Doudna, Cech: Nature 2002 • Alberts et al. – Chapter 6, pp. 349-358 – Chapter 6, pp. 378-379 – Chapter 6, p. 400 – end • Fedor & Williamson, Nat. Rev. Molec. Cell Biol. 2005
16	Tu, Feb 28	Replication strategies and control	PS #4 out, due back Mar 6	EVR	Ch. 5
17	Th, Mar 1	Genomic integrity: mutation & error repair		EVR	Ch. 5
18	Tu, Mar 6	Controlled violations: immunology and viruses		EVR
19	Th, Mar 8	Review		EVR, TAs
	Sat, Mar 10	Finals out
	Th, Mar 15	Finals due
	We, Mar 21	Grades submitted

Schedule and Questions for oral presentations