10:00a – 10:50p
Goals
- team meeting — need replies for XZ and Tani
- Stain new yellow domains
- troubleshooting multi-color
Chromatin Analysis
- preliminary analysis of radius of gyration.
- wrote code to compute flists (now a Chromatin Function) for old data which just had parameters vlists, and final pixelated images. This should be useful for matching the resolution
- a few outliers
- G06 still (I think this one needs to get redone because I believe it missed the RNase treatment)
- C02 is also substantially off on radius of gyration, though not my prior area calculation so much. This bears looking into
STORM
- Playing with multi-color analysis of F03-F04
- round 1: day old TCEP buffer
- round 2: new TCEP buffer
- round 3: new COT MEA buffer, low MEA
- Try COT + TCEP? (TCEP pretty annoying in not being able to see conventional spots. With the background issues I think this is going to be a disaster).
- Try more or fresher COT? Fresher MEA? Epoxy sealed chambers?
Simulations to do:
- polymer chain interactions — entangled chains with separated centroids. unentangled chains with non-separated centroids.
- A few regularly spaced strong contacts in an otherwise weakly sticky polymer (can’t be too sticky, or it will just collapse to the space-filling case always). Simulating this now.