Tag Archives: Library2

Friday 11/01/13

Posted on November 1, 2013 by admin

10:00a – 9:15p Coding ChromatinCropper Current version not saving vlists! (molecule lists specific to ROI). need more display images in analysis. Data analysis: H:\2013-09-24_F6-405\splitdax Savefolder: ‘C:\Users\Alistair\Documents\Research\Projects\Chromatin\Data\2013-11-01_coloredRegions’ SplitDax System now checks filesize of the new daxfile. If expected size = actual … Continue reading →

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Wednesday 10/30/13

Posted on October 30, 2013 by admin

9:00a – 10:50p STORM Finish O/N E10 imaging Hao imaging set up O/N imaging of E12 (600 kb G) with 20:30,000 bead dilution. Qualitative observations: some G regions quite large, seem pretty decompact. Others more compact? Laser power dropped to … Continue reading →

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Tuesday 10/29/13

Posted on October 29, 2013 by admin

9:30a – 10:00p Other Goals Spoke broke. Pick up repair between 4p-6p. Presentation Prep working on slides for Rowland Center Talk. STORM Finish O/N imaging of E08 (75kb R) Set up imaging of E10 (100kb Y) Mentoring HC genes for … Continue reading →

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Sunday 10/27/13

Posted on October 27, 2013 by admin

5:30p – 10:15p STORM Record z-calibration scans for STORM4 Imaging E1 (200 kb green) cells on STORM4 Chromatin modeling Found small bug in Bogdan’s code which prevents condensation This seems to now to work as expected. Data copying data from … Continue reading →

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Wednesday 10/23/13

Posted on October 23, 2013 by admin

9:15a – Deep seq prep / discussion Miseq = 25M reads. Have almost 92K unique sequences in my library, so need 1M sequences just for 10 fold coverage. recommend run all libraries at equal concentration — we’ll get a lot … Continue reading →

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Monday 10/21/13

Posted on October 21, 2013 by admin

10:40a – 12:00a Deep seq lib test gel clean up. 12 samples x 4 dilutions x 3 replicates = 144 samples dilution buffer = 10 mM Tris pH 8 + .05% Tween-20 (500 uL 1M Tris HCl + 250 10% … Continue reading →

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Sunday 10/20/13

Posted on October 19, 2013 by admin

1:00p-2:30p, 5:00p-11:50p Goals: Today write up some notes on Stowers presentations. layout slides for Rowland Center talk (in progress) This Week Write up Banff Report! Probe Making PCR: Large Regions (primer concentration) D11 100 kb percicentric Green (320 ng/uL) D12 … Continue reading →

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Wednesday 10/16/13

Posted on October 16, 2013 by admin

10:00am – 11:00pm Coding finishing up addition of cross-correlation based drift correction for global and local region data to ChromatinCropper GUI Mentoring Bogdan finds that samples which gave extra bands on PCR failed T7 reaction. Other samples gave good (~1000ng/uL) … Continue reading →

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Tuesday 10/15/13

Posted on October 15, 2013 by admin

11:00am – 12:30p Fly work Flip stocks terminate bottle stocks Coding working on ChromatinCropper added user controls added drift correction options changed display changed export / save data methods STORM STORM of G5-P2-Cy3 with G4-P1-405 Little/no signal in Cy3 channel … Continue reading →

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Friday 10/11/13

Posted on October 11, 2013 by admin

10:00a – 10:30p Goals send Ph modeling results to Ajaz work on presentation send reminder about racing Saturday STORM analysis Copying F11 data to ProBox2. Delete data from Storm2 Running splitdax on no405Primary, E07fail, F09, and F01v2 (latter 2 including … Continue reading →

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