Monthly Archives: August 2012

Wednesday 08/07/12

Posted on August 8, 2012 by admin

9:50 A – 6:55P STORM4 run on slide 3b still going. tweak to make outside borders as sharp as internal borders in snail code.  Might need to make more repressor cells in simulation. shoot new z-calibration movies in 4 channels … Continue reading →

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Protected: analyzing promoter swap data

Posted on August 6, 2012 by admin

There is no excerpt because this is a protected post.

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Monday 08/06/12

Posted on August 6, 2012 by admin

9:45 A – 5:00P, 10:00P – 12:25A Finish O/N confocal run of slide 3 (Tub + Antp) Copying data from Alistair6 to Alistair5 Lab meeting (Wenqin) Troubleshooting issue with Steve output – not perfect linear relation between microns and pixel … Continue reading →

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Sunday 08/05/12

Posted on August 5, 2012 by admin

2:30P -8:30 etching S4, 1hr sample outrageously under-etched, resin edges clearly visible. Need to check these on Turnkey first.  Could even blast 647 on STORM scope. confocal of triple label try 3 successfully wrote rebuild_mosaic.m.  just use for 100x images — … Continue reading →

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Saturday 08/04/12

Posted on August 4, 2012 by admin

10:00A-2:45P, 5:20P-7:00P, 8:30P-10:30P in situs day 3 (triple stain try 2). STORM imaging slide 2 from 6/24 stains (Antp) mount samples 1-5 + centromere/K27/Dm01 v2, post-fix rest. Hal running smoothly. Imaging conventional images of each section just prior to STORM … Continue reading →

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Code updates

Posted on August 3, 2012 by admin

updated with new data from snail mRNA counting (1x 4x and promoter studies) m Unsupervised_DotFinding.m m Unsupervised_DotFinding2.m m Unsupervised_DotFinding3.m + Unsupervised_DotFinding4.m + Unsupervised_DotFinding5.m + Unsupervised_DotFinding6.m + Unsupervised_DotFinding7.m + cyto2nucmap.m m fxn_nuc_seg.m + fxnclean_v2.m + fxnproject_color.m + imclean.m + imclean_1.mat + … Continue reading →

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Friday 08/03/12

Posted on August 3, 2012 by admin

9:50 A – 8:15 P STORM O/N run still scanning (ran 488 movie 2Hz too long).  Aborted Make new Glox (STORM4 images look dim / not enough photons/switches given brightness of conventional signal).  suspect Glox kept in door might have … Continue reading →

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Thursday 08/02/12

Posted on August 2, 2012 by admin

9:50A — 6:20, 8:20p – 11:55P Confocal O/N — not enough sections / .17 spacing too close to make it through nuclear layer.  trashed image. STORM O/N — Hal froze on movie 48.  Sent crash report to Hazen.  Shut down … Continue reading →

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Wednesday 08/01/2012

Posted on August 1, 2012 by admin

10:10 A – 7:30P, 8:20P – 10:45P Flip collection cages. Meeting with Ting and Xiaowei. KE miniprep cg5… cg10… and bxd samples.  lab colonies did not grow in liquid culture?  Sent samples for sequencing. STORM of Pc6_cntrl Label new dk-rb-750 … Continue reading →

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