week

topic

reading

1

7 jan

course overview; expression refresher: the lac operon

none

2

14 jan

evolution and expression

Wray MBE

3

21 jan

mechanisms of gene expression

TBA

4

28 jan

sequence evolution, tests of neutrality

Wayne & Simonsen

5

4 feb

evolution of TF CDS: Fox p2

Enard et al Nature

6

11 feb

evolution of regulatory regions: tests of neutrality

Kohn et al MBE

7

18 feb

evolution of regulatory regions: phylogenetic footprinting

Bofelli et al Science

supplementary info

8

25 feb

evolution of regulatory regions: motif detection

class demo

9

4 mar

¡spring break!

nada

10

11 mar

chromatin: methylation and imprinting

Li et al, Peg3 and maternal care

11

18 mar

chromatinstructure and co-expression

Mezey and Jones, manuscript with supplementary info

12

25 mar

chromatin: the nuclear matrix

Primary paper: Cai et al. 2003

Optional N&V reading

Optional background on MAR controversy

13

1 apr

review of transcriptional regulation

TBA

14

8 apr

transposons as enhancers

Primary paper: Jordan et al 2003

Secondary (easy) paper: Shapiro 2005

15

15 apr

functional analysis of promoter evolution

Ludwig et al 05