Monthly Archives: December 2013

Tuesday 12/31/13

Posted on December 31, 2013 by admin

9:00a – 5:00p Goals set up STORM imaging for PhWtPh. improved drift correction write quick script to average bead dax movies (and split them out?). Test on the G1-G1 0004 data? modify feducialDriftCorrection function to be able to handle time … Continue reading →

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Monday 12/30/13

Posted on December 30, 2013 by admin

9:20a -7:00p Goals Analyze 2-color STORM data test out new image-writers for hal Getting started Monet windows explorer froze and got killed. Requires restart. Finish up notes from yesterday, add gel images to notebook. STORM attempted software update to do … Continue reading →

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Sunday 12/29/13

Posted on December 29, 2013 by admin

9:00a – 12:15a Goals Write to Ajaz about new plans Read in _oligo.txt files and analyze probe distributions STORM G1-G2 Start analysis of F12-G01 and F12-G11 data continue work on STORMrender Manual Literature Reading Kieffer-Kwon et al Cell 2013. link … Continue reading →

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Saturday 12/28/13

Posted on December 28, 2013 by admin

9:30a – 1:45a Library 3 Design / probe building Results from first attempt at probe assembly oligoArrayCommand was getting rewritten in the loop, need a temp parameter to preserve the genename flag to be used for substitution consequently probe building … Continue reading →

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Friday, 12/27/13

Posted on December 27, 2013 by admin

9:30a – 9:50p Goals Test run of library 3 design. See how many probes we are up to. Test last round of 2 color stains STORM STORM imaging of F12-647, G1-750. Both dyes nice and bright. Background a bit high … Continue reading →

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Monday 12/23/13

Posted on December 23, 2013 by admin

11:00a – 5:00p chromatin project New imaging chambers working on constructing new microfluidic chambers (Jeff’s design) to refresh buffers during imaging and reversibly bind coverglass. issues getting the Plasma cleaner to work properly. Setting high? Determine oxygen flow by hand? … Continue reading →

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Sunday 12/22/13

Posted on December 22, 2013 by admin

9:45a – 11:50p Goals align 750-647 G1 double stains matlab-storm STORMrender update menu options for feducial drift correction to allow finding the bin file of feducial data using the browser (oops, this was already the default for an empty input, … Continue reading →

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Protected: two-color chromatin STORM controls

Posted on December 22, 2013 by admin

There is no excerpt because this is a protected post.

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Saturday 12/21/13

Posted on December 21, 2013 by admin

10:15a – 5:00p, remotely, 10:00p-12:00a Cell staining wash out secondary stains. no microscope time available. matlab-storm debugging new info-file reader to determine analyzed region There is still a problem here. There is only one info file for the movie. chromewarp … Continue reading →

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STORM2 dye and buffer testing

Posted on December 20, 2013 by admin

optimizing buffer conditions for deep 3D imaging of A647 and A750 labeled chromatin First buffer 750 and 647_storm_0001 – 0004 1/2x BME (new) 2 mM COT (new, reg strength) 350-380 mW 647 laser (2960 mA) 2100 mA of A750 1% … Continue reading →

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