Why did you use methyl methanesulfonate to trigger DNA damage?
It’s a very popular damaging agent for the study of basic DNA repair. There are different ways of damaging DNA, and MMS is used because it is an alkylating agent and it turns out that several chemotherapies are alkylating agents as well. What kinds of arrays did you use for the ChIP-chip experiments? This work was all done using arrays printed by the MIT/Whitehead Facility, which is basically run by Rick Young’s lab. So we purchased them from Rick Young. More recently we have been using Agilent ChIP-chip arrays, but not as part of this study. All the data for this study were wrapped up about a year ago. What is your take on current commercial arrays? Agilent arrays are the only ones I have experience with. But I know NimbleGen is in the market and basically anyone that makes whole-genome tiling arrays these days could also be in the market. The main issue with this application is that there’s a really long protocol and it remains to be seen whether or not companies will be successful i
