Topic #2: February 9th & 16th: Hulali & Avehhi

SNACKS & Who is Who February 16th: Ryan and Sean

Behavior paper:

Bastian M, Sponberg A, Suomi S, Higley J. (2002). Long-Term Effects on Infant Rearing Condition on the Acquisition of Dominance Rank in Juvenile and Adult Rhesus Macaques. Developmental Psychobiology.

Genomics paper:

Massart R, Suderman M, Provencal N, Yi C, Bennett AJ, Suomi S, Szyf M (2014) Hydroxymethylation and DNA methylation profi les in the prefrontal cortex of the non-human primate rhesus macaque and the impact of maternal deprivation on hydroxymethylation. Neuroscience 268:139–148.


Questions for reading (students must turn in 6 sets throughout semester):

State the hypothesis in your own words.

Describe 3 ways in which the evidence support the hypothesis?

What were the two experimental groups?

Explain how they were differentiated.

What are the various functions of hydroxymethylation proposed by the authors?

What are the differences between hydroxymethylation and methylation?

Why were hydroxymethylation and methylation levels from mice used?

Explain the Methylated DNA immunoprecipitation (MeDIP) and labeling procedure. (It may be helpful to define sonicated and immunoprecipitated.)

What is a CpG site?

What would figures 2a-d look like if there was a negative correlation between gene expression and 5hmC levels?

How does the authors define HCP, ICP, and LCP in Figure 1?

Use the information from Figure 1C and 1D to explain the distribution of points in Figure 1B.