10:00 am – 11:30 pm
Chromatin Data Analysis
- troubleshooting failed drift correction using auto-correlation
- reprocessed all recent 2 color data
- working on new method of quantifying overlap — just average distance to all self points vs average distance to all flanking domain points. If this is near 1, the domains are highly entangled.
- should probably normalize this by radius of gyration.
Data Observations
- started exporting 3-color maps of blue regions for figures
- all my current blue regions are flanked on both sides by yellow chromatin. No Blue-black.
Important control
- 2D projection estimates of radius of gyration may be systematic underestimates
Paperwork
- uploaded final version of BWF application
STORM
- attempting imaging of chromatin L4E7
- some cells still have 2 spots, occasionally also satellites. Most look more 1 spot as expected.
- should still quantify, not sure its 80% paired, probably leaning that way though.
- major lag issues with hal recording
- dave bleaching issue does not appear to be reproducible
- had system in true TIRF for a while, 647 spots inside nuclei completely invisible (all cells/nuclei 647 stain data completely invisible, had me confused that I lost cells for a while).
- cells a bit sparse, I may have missed the polyLysine coating on these guys.