Tag Archives: modeling

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 →

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Protected: thoughts on chromatin structure

Posted on March 30, 2014 by admin

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Thursday 02/21/14

Posted on February 20, 2014 by admin

5:30p – 8:00p, 9:00p – 10:30p (snowshoeing). Random Walk Polymers Quick reference with the scaling of the self-avoiding RWP (exponent = 3/(2+d), where d is the spatial dimension). Thus 0.6 for 3D SAW polymer More interesting stuff http://arxiv.org/pdf/0711.3679v1.pdf Pivot + … Continue reading →

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Thursday 10/24/13

Posted on October 24, 2013 by admin

8:40a – 6:20p, 11:30p – 12:55a Goals Fix Ph model — neigbhors of neighbors in situs day 2 Cell Staining Hot washes (20 min, 2x 9 min in oven + 1 min switch) 1x SSCT cold wash PBT wash 45 … Continue reading →

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Tuesday 04/02/13

Posted on April 2, 2013 by admin

9:45A – 5:00P, 8:00P – 10:00P Modeling Exploring parameter space of site-interaction-number models. Bursty regime: fraction of time in the transcribing state is low (kon/(kon+koff)) Transcription rate in the on phase cooperativity noise Most obvious at low induction In general … Continue reading →

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Monday 04/01/13

Posted on April 1, 2013 by admin

10:00 A – 7:00P, 9:00P-10:00P General hp psc1200 printer not printing color correctly. lab meeting (notes) journal club (notes) Review writing Insight 1: enhancer switching between obstructed and unobstructed case is the bursting model with different tx rates from ‘off’ … Continue reading →

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Tuesday 03/26/13

Posted on March 26, 2013 by admin

10:30 A – 7:30 P, 8:30 P – 10:30 P Tx-review working on literature references, laying out introduction. Stinchcombe model write out probability mass function of discrete mRNA arrivals in terms of the random differential equation for the continuous mRNA … Continue reading →

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Saturday 03/16/13

Posted on March 16, 2013 by admin

11:00 A – 7:00P Kinetic modeling STORM Analysis Switching is indeed failing on BX-C 2/20 data. Sad we still don’t have this basic data with enough depth yet. S3 cell data shows plenty of blinking out at 58 and 90K … Continue reading →

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Saturday 03/09/13

Posted on March 9, 2013 by admin

10:30 A STORM setup imaging of 2x-Cy5 labeled Fab7. Hardly detectable loci in conventional — many (most?) cells no candidate locus detectable. General cy5 background seems higher. Found a few cells that look like reasonable candidates for conventional. Background clearly … Continue reading →

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Protected: snail bistable analysis

Posted on August 30, 2012 by admin

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