Author Archives: admin

Thursday 08/29/13

Posted on August 29, 2013 by admin

8:15a – 7:00p Multi-stain analysis try crosslinking 415 beads to fresh, unfixed cells initial beads somewhat clumped and extremely bright, especially under high 405 illumination (or minimal weak 488 illumination). Beads do successfully blead into 647 channel at moderate brightness … Continue reading →

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Wednesday 08/28/13

Posted on August 28, 2013 by admin

8:00a – 7:15p, 10:15p-11:00p Probe making set up in vitro Tx reactions run new gel with ladder: G1 and G7 look blank, others look good (a bit troubling, since G7 nanodrops at ~75ng/uL even though G1 goes blank). Full library … Continue reading →

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plate PCR for 82 libraries

Posted on August 28, 2013 by admin

for each sublib (50 uL reaction) 19 ddH2O 5 uL 5 uM common 1 uL of 1:10 diluted library 25 uL Phusion master 0.25 uL of 200 uM T7 lib specific primer master mix (83x) 1577 uL ddH2O 415 uL … Continue reading →

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T7 in vitro Tx

Posted on August 28, 2013 by admin

Library2, samples G1-8 skip sample G1, no DNA recovery NEB For each sub-library, mix the following in a single PCR tube or well of a PCR strip or plate 8 uL DNA template + 2uL ddH2o 1.5 uL 10X T7 … Continue reading →

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PCR

Posted on August 28, 2013 by admin

Amplifying G1-8 using T7 primers for each sublib 18.5 ddH2O 5 uL 5uM common 1 uL library (cut to .5, at 1uL I can only do each lib once) 25 uL Phusion master master mix (9x) 166.5 uL ddH2O 45 … Continue reading →

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Monday 08/26/13

Posted on August 26, 2013 by admin

9:45a – 6:30p STORM finish O/N STORM run of AbdA cells Cell culture changed media on 3 new Kc-cell flasks plated media on polyL coated coverglass. cells somewhat sparse, let’s give them some time to grow before fixing. Data clean-up: … Continue reading →

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Protected: New OligoPaints Protocol

Posted on August 26, 2013 by admin

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Sunday 08/25/13

Posted on August 25, 2013 by admin

2:45p – 7:15p Review revising introduction of models Cell culture clone8 cells growing fast. A bit overgrown, need to split this afternoon. separated ‘non-adherent’ fraction of Kc167 cells remain primarily non-adherent. Adherent fraction of remains adherent. test plate Kc167 cells … Continue reading →

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Saturday 08/24/13

Posted on August 24, 2013 by admin

4:00p – 6:30p (420 regatta day) Coding Turned splitQVdaxFast into a function. Overwrote splitQVdax original, made that file into splitQVdaxM (for mem-map). overall it looks like memory mapping dax files is a bad idea. They are too big. Running new … Continue reading →

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Friday 08/23/13

Posted on August 23, 2013 by admin

10:15a – 8:10p, 8:50p-11:05p BX-C tiling Finish O/N STORM of Ubx spots start 65C 50% formamide rinse out of probe (30 min) Hot wash of newly labeled Ubx (orginally AbdA): 60C 2x SSCT Image Ubx. Correspondence of cells and correspondence … Continue reading →

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