8:40a – 12:50a
Goals
- Cell culture
- check cells. Probably all need to grow at least another day or two
- Show BB the contaminated cultures for teachable moment.
- Cell staining
- ~ 3-4 pm start hot washes for Y RNA vs DNA stains
- Probe Making
- PCR for new probes
- Start making slides for meeting with XZ tomorrow
Meetings
- lab meeting (see notes)
- discussions with Hao prep for XZ meeting tomorrow.
Mentoring
- helping Bogdan troubleshoot analysis code. Initialized separate branches in repo.
Probes to make next
moderate size regions
- D08 50 kb green, next to red domain
- D10 RED 50kb (upstream ush, no gene)
- E03 BLUE 13 KB (no genes, good PC/Psc)
- E05 BLACK/blue 54 kb region upstream of E(Pc)
- E11 50 kb GREEN scattered with repeats
- F03 Ubx_through_bxd
- G04 Antp
- Neg control, primer plate diluted, G12 neg control
* All regions look good on Lib2 SeqPrep gel primers, except E5. (dilute new primer)
Master mix
- 6 pmol/uL common primer (6 uM). want 25 pmol = 4 uL per reaction. 4*9 = 36 uL
- 25*9 = 225 uL Phusion. + 5 uL 1:20 library + 180 uL ddH2O.
Gel results
- samples 1-8 in order.
- lid came off sample 4, all PCR evaporated.
Coding
- merged to matlab-storm [alistair] into [master].
- Fixed issues with my Windows GitHub and Bogdan’s on Tuck and Cajal.
- wrote GPU independent version of plotSTORM_colorZ (calls backup function list2img).
- Time trials:
