Monthly Archives: February 2013

Saturday 03/23/13

Posted on February 23, 2013 by admin

10:30 A – 6:20P, 9:30P Embryo collection Flip all fly cages dispose of previous fly plates with new plate recycling and freezing system. Fix embryos 9:30 PM (~3-14 hrs, mostly at raised at 29C). STORM working out parameters for TCEP … Continue reading →

Posted in Research Planning | Tagged , , | Comments Off on Saturday 03/23/13

STORM Buffers

Posted on February 23, 2013 by admin

TCEP Buffer 0.2M Tris pH 9  (200 uL Tris 1M pH 9.0) 1 mM Methyl viologen (10 uL of 0.1 M stock.  Currently make fresh from powder. Toxic) (25.7 mg / mL) 1 mM Ascorbic Acid (10 uL of 0.1 … Continue reading →

Posted in Protocols | Comments Off on STORM Buffers

Friday 02/22/13

Posted on February 22, 2013 by admin

10:00 A – 7:30 P Embryo Work Flip collection plates STORM analysis Fixed bug in subcluster algorithm that was preventing all data for all subclusters from being exported reran analysis of S2 vs S3 ran analysis of Fab7 +/- 405. … Continue reading →

Posted in Summaries | Tagged | Comments Off on Friday 02/22/13

Protected: First look at embryo clustering data

Posted on February 22, 2013 by admin

There is no excerpt because this is a protected post.

Posted in Chromatin | Comments Off on Protected: First look at embryo clustering data

Thursday 02/21/13

Posted on February 21, 2013 by admin

10:00 A – 7:30P, 8:30P – 10:30P STORM O/N 200Hz run of BXC-cy5 still going Not entirely sure this setting is actually running 200Hz. dyes switching somewhat sluggish now, bumped up power to 300mW. Stop run, image beads. Prep new … Continue reading →

Posted in Summaries | Comments Off on Thursday 02/21/13

Wednesday 02/20/13

Posted on February 20, 2013 by admin

10:00 A – 7:15P, 8:30P – 11:15P STORM Samples: BXC cy5 (single primary) and BXC cy5 + 750 secondary BXC-cy5 mounted for imaging 12:00P Realigned optics Taking bead calibration images Working out parameters to do z-scan. Can’t go too far … Continue reading →

Posted in Fly Work, Summaries | Tagged , , | Comments Off on Wednesday 02/20/13

Tuesday 02/19/13

Posted on February 19, 2013 by admin

10:00A – 1:40P, 3:30P-12:10A Computer restart required for hotswap and to switch Alistair8 back to eSATA delete HB data from Alistair3b (now on Alistair3). disconnect Alistair3 future disk shuffling of earlier data might be better done on Tuck? remove Buffalo … Continue reading →

Posted in Summaries | Tagged , , , | Comments Off on Tuesday 02/19/13

Monday 02/18/13

Posted on February 18, 2013 by admin

9:50 AM – 7:30P, 8:30P-11:00P Embryo work Collection cages moved to 25C Flip collection cages Fix Esc embryos (3-12 hrs) Fix 4P: Pc/Ph/Scm embryos 6-18 hrs Lab meeting notes Fly Work AM esc virgin collection PM esc virgin collection all … Continue reading →

Posted in Summaries | Comments Off on Monday 02/18/13

improved cluster analysis

Posted on February 18, 2013 by admin

search radius cluster algorithm fastest implimentation is hist3 with binsize = search radius can easily require multiple molecules in the search radius by filtering: M=hist3([x,y],[Xmin:radius:Xmax,Ymin:radius:Ymax]); so if we want 15 nm search radius, just make 15nm steps M>3 require at … Continue reading →

Posted in General STORM | Tagged , | Comments Off on improved cluster analysis

Protected: cluster analysis first try

Posted on February 18, 2013 by admin

There is no excerpt because this is a protected post.

Posted in Chromatin | Tagged , | Comments Off on Protected: cluster analysis first try