Monthly Archives: December 2013

Friday 12/20/13

Posted on December 19, 2013 by admin

10:00a – 12:45a STORM imaging need images of 715 beads to align A750 and A647 channels Making new 715 bead slide at 1:20,000. If this looks good we can try a 2-color bead slide as well. trimming the tape so … Continue reading →

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Thursday 12/19/13

Posted on December 19, 2013 by admin

9:50a – 12:00a Goals label RT PCR set new RTs cast gels matlab-storm update and STORMfinder + STORMrender migration + demo Probe making RT temp test results RT round 3 Run RT with ~5 uL RNA and ~1.2 uL primer … Continue reading →

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Wednesday 12/18/13

Posted on December 18, 2013 by admin

10:30a – 8:15p, 12:00p- 1:00a Meeting with XZ prepping slides (see notes) Test probes synthesis analyze tomorrow Coding matlab-storm Work with Jeff to restructure startup / installation need to update readme need to update all global variables to new conventions … Continue reading →

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Tuesday 12/17/13

Posted on December 17, 2013 by admin

11:00a – 9:30p Probe making test gel for samples 3 and 4 at 2:6 primer:RNA and 42 vs 50C incubation for 1hr. no incoroporation at all. Must have screwed something up. Cell staining wash out stains for F11 double label … Continue reading →

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Protected: lab meeting 12/16/13

Posted on December 17, 2013 by admin

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Monday 12/16/13

Posted on December 16, 2013 by admin

9:50a – 1:00a Group meeting 10a – 2p see notes Probe making cy7 dye from Lumipore arrived A750 labeled IDT primers arrived first test gel — try old gel of Bogdan’s (11/18). Ran smeary and fast, primers ran off the … Continue reading →

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Sunday 12/15/13

Posted on December 15, 2013 by admin

11:00a – 9:00p z-calibration some new ideas for finalizing new z-calibration routine: see if different starting z-position affects curve alignments (isn’t that the whole hypothesis in the first place?) well, all the data comes from the same range, but the … Continue reading →

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Saturday 12/14/13

Posted on December 14, 2013 by admin

11:15a – 2:30p, 6:00p – 11:45p Coding matlab-storm test installation: created new ZhuangLab account Install for Guipeng. DaoSTORM objects to spaces in pathname. adding double quotes ” does not fix. library Prep New function (in Genomics Functions toolbox) function Seq … Continue reading →

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Friday 12/13/13

Posted on December 13, 2013 by admin

10:45a – 12:15a Notebook backed up notebook updated wordpress Z-calibration cross correlation doesn’t improve curve alignment visibly — curves are fundamentally a bit different no spatial structure evident Ph Project reviewing simulation results saved as simulationName_2.eps to file Test new … Continue reading →

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Thursday 12/12/13

Posted on December 12, 2013 by admin

10:45a – 11:00p Ph Simulations Troubleshooting extra along bonds. Oops, actually just resulted from plotting the wrong attachment matrix for the given position list. Simulations ran at subsaturating Ph — more total sites than available Ph. Hence there is a … Continue reading →

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