Monthly Archives: February 2014

Thursday 02/13/14

Posted on February 13, 2014 by admin

9:30a – 12:40a Goals Today Start Bowtie analysis of Deep-Seq data Apply new drift correction approach to STORM data, compare spot quality STORM imaging of PH clusters + DNA FISH if anti-PH fails, try to restain with anti-Flag nuclear signal … Continue reading →

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Wednesday 02/12/14

Posted on February 12, 2014 by admin

9:50a – 11:59p Ph Project Cell staining hot wash post-hybe PBS wash Block 1 hour in 2% BSA primary stain rb a-Ph for 2 hrs RT, 6 hrs 4C rinse, wash in PBS, reblock, secondary stains O/N at 4C (m … Continue reading →

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STORM2 stats 02/12/14

Posted on February 12, 2014 by admin

Max Laser Powers 488 laser head (100%): 580 mW 488 before expander: 275 mW 488 microscope backport: 180 mW 561 at head (2100mW in GUI): HIGH 561 laser at beam expander: 1500 mW 561 laser at backport 900 mW 647 … Continue reading →

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Tuesday 02/11/14

Posted on February 11, 2014 by admin

9:50a – 12:15a Chromatin Project Deep sequencing QPCR run QPCR quantify results from QPCR C:\Users\Alistair\Documents\Research\Projects\Chromatin\Code\Scripts\qPCR_MiSeq2Prep_140212.m MiSeq Prep sample concentrations / calculating dilutions: orig library raw 10 uL scale reaction: 25, 14, 25, nM dilutions 1:10 diluted: 1.98, 2.0, 2.0 these … Continue reading →

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Goals 02/10/14

Posted on February 11, 2014 by admin

To Do Ph project analyze gene expression data by chromatin region write code to grab all genes mapping to blue regions take all blue intervals (already recorded), get gene by interval (function already built), let run. the gene matching game! … Continue reading →

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Monday 02/10/14

Posted on February 10, 2014 by admin

9:30a – 11:50p Meetings Group meeting (see notes) Journal club team project meeting Literature interesting perspective: http://www.sciencemag.org/content/343/6171/596.full Pauli’s paper: discovering new developmental signalling peptide (Science) Chromatin Data analysis Analyzed G01-G02 up to image 23 start (re-)analyzing F03. F03 data analyzed … Continue reading →

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Journal club 02/10/14

Posted on February 10, 2014 by admin

Flash Memory: photochemical imprinting of neuronal action potentionals onto a microbial rhodopsin (Cohen Lab). JACS Jan 2014. High Res confocal microscopy (not STORM/PALM/SMACAM) Two PRL papers High-resolution confocal microscopy by saturated excitation of fluorescence. Fujita et al, PRL, November 2007. … Continue reading →

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Protected: lab meeting 02/10/14

Posted on February 10, 2014 by admin

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Protected: chromatin data analysis 02/09/14

Posted on February 9, 2014 by admin

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Sunday 02/09/14

Posted on February 9, 2014 by admin

10:20a – 9:40p Chromatin project finish analyzing new ANTC data Analyze all remaining complete yellow domains Analyze G01, G02, G03, G04, G01+G02 Progress notes: see protected post

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