Tag Archives: STORM

Sunday 08/03/14

Posted on August 3, 2014 by admin

10:15 am – 8:00 pm Probe making out of RNasin, out of Maxima, not able to proceed with probe making. really need to have back ups of these. Coding started to write SteveMosaicViewer GUI drag and drop of a mosaic … Continue reading →

Posted in Summaries | Tagged , , | Comments Off on Sunday 08/03/14

Tuesday 07/08/14

Posted on July 8, 2014 by admin

10:00 am – 8:00 pm, 11:00 pm – 11:50 pm Sequential staining F06 at least stains this time, some spots quite clear. However staining not very good and STORM pretty weak. Tried flowing more secondary for an extra 2 hours … Continue reading →

Posted in Summaries | Tagged , | Comments Off on Tuesday 07/08/14

Thusday 07/03/14

Posted on July 3, 2014 by admin

9:50 am – 7:30 pm coding found and fixed bug in ClusterStats.m Sequential hybes blead-back in of probe signal: probably a sign of not sufficiently sealed chamber. Try air drying sample and then sealing really tight. hybe2 stain initially very … Continue reading →

Posted in Chromatin, Summaries | Tagged , | Comments Off on Thusday 07/03/14

Wednesday 07/02/14

Posted on July 2, 2014 by admin

10:00 am – 11:35 pm Goals Remove panel (c), add multiple examples of 405-cy5 BX-C spots for oligo-secondaries for previous panel (e) Fix feducialDriftCorrection — github still preserves the lowercase name. maybe best fix is to correct spelling (FiducialDriftCorrection) write … Continue reading →

Posted in Summaries | Tagged , | Comments Off on Wednesday 07/02/14

Saturday 06/28/14

Posted on June 28, 2014 by admin

10:45 am – 5:30 pm, 9:00 pm – 11:50 pm Small tasks restart data copying after computer freeze last night (GPU computation abort failed) restart sticky polymer simulations STORM imaging imaging sample C10 (blue 33 kb vg locus). Conv images … Continue reading →

Posted in Summaries | Tagged , | Comments Off on Saturday 06/28/14

Friday 06/20/14

Posted on June 20, 2014 by admin

10:00 am – 11:55 pm Simulations simulations with more nodes (1 every 300 bp) of blue regions don’t ‘work’, simulation time not long enough for distributions to converge. too many nodes such that larger regions never experience bonding interactions. Maybe … Continue reading →

Posted in Summaries | Tagged , , , | Comments Off on Friday 06/20/14

Thursday 06/19/14

Posted on June 19, 2014 by admin

10:00 am – 8:15 pm Working on Python OpenMM simulations goal, attempt to execute some of Mirny’s example code. Attempting to run demos e.g. scaffoldExample.py complains about notfinding joblib. installed this, required instlaling this complains about not finding mirnylib, which … Continue reading →

Posted in Summaries | Tagged , , , | Comments Off on Thursday 06/19/14

Tuesday 06/17/14

Posted on June 17, 2014 by admin

10:00 am – 5:00 pm, 7:00 pm – 11:40 pm Literature interesting article on FACs smFISH sequencing from vanO group. interesting article on noise models for single cell sequencing from vanO group as well STORM D01 finished smoothly setting up … Continue reading →

Posted in Summaries | Tagged , , | Comments Off on Tuesday 06/17/14

Tuesday 04/15/14

Posted on April 16, 2014 by admin

9:30a – 11:55p Computer stuff troubleshooting Cajal 590 GTX graphics card fried installed AMD card that came with Dell not recognizing all RAM (only 40 of 48 GB recognized) Turned off, pressed all RAM firmly into DIMM slots. Now only … Continue reading →

Posted in Summaries | Tagged , , | Comments Off on Tuesday 04/15/14

Wednesday 04/09/14

Posted on April 9, 2014 by admin

9:30a – 8:30p Chromatin labeling stains failed again. No stains yet detected with this batch of cells. maybe it’s a cell prep issue? This F07 probe worked fine before. maybe some reagents went bad in the cell prep? Make new … Continue reading →

Posted in Summaries | Tagged , , | Comments Off on Wednesday 04/09/14