9:00 am – 9:50 pm
MERFISH
Playing with deconvolution of Laplacian processing
- see notes
- summary: very promising in speed, accuracy, simplicity, and aesthetics.
- ran new pipeline on 141004 data (saved in folder 150520)
- rerunning with more stringent selection against background (in folder 150520b). 50 cells ~1 hour run time (largely in saving data).
- starting pipeline5 script — combine read & warp dax files with rest of analysis. Convert into functions.
For presentation
- Register for EMBO meeting on nuclear structure and submit abstract
- highlight differences in structure in summary
- “compact and diffuse domains, branched and linear domains, domains that are highly entangled with one-another and domains which are strictly segregated”
- highlight implications
- short range contacts in Active regions in cultured cells
- long range interactions in Polycomb domains
- hox genes more tightly packed than other genes because of colinearity. (better repressed)?