Author Archives: admin

Protected: project 2 update 03/24/14

Posted on March 24, 2014 by admin

There is no excerpt because this is a protected post.

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buffer tests 04/23/14

Posted on March 23, 2014 by admin

1% BME 10 mM MEA 0.5% BME + COT 2% BME + COT 10 mM MEA + COT 50 mM MEA +COT 50 mM MEA + SSC + COT

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git remove binary files

Posted on March 21, 2014 by admin

See current file size. First need to git gc Alistair@MONET ~/Documents/Research/Projects/Chromatin/Code (master) $ git gc Counting objects: 713, done. Delta compression using up to 8 threads. Compressing objects: 100% (570/570), done. Writing objects: 100% (713/713), done. Total 713 (delta 257), … Continue reading →

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Friday 03/21/14

Posted on March 21, 2014 by admin

10:30a PH project results at greater sampling depth, longer simulation time, for the current published table parameters see PH project version corresponding to current date for details. Data\2014-03-17_PhSim\PhCell_CappingModel5.mat Research Organization Reorganizing projects folder Freezer space organization started new box: Lib3 … Continue reading →

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Thursday 03/20/14

Posted on March 20, 2014 by admin

10:15a – 12:15a Project 2 see protected notes Chromatin Project Probe Making RTs 4 uL primer gel looks good, basically complete incorporation. Maybe try 8 uL primer next time? (going to need to order more primer!) probes in 4C walkin, … Continue reading →

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Physicists of Biology hangout 03/20/14

Posted on March 20, 2014 by admin

Pallav Kosuri (Zhuang Lab) Intro passive elacticity — stored energy in (in-elastic) muscle. contrast running to yoga. muscle structure z-bands spanned by titin. Titin stretches elastically. Atomic Force Microscope and Titin Force clamp setup: fixed force (through feedback, measure force … Continue reading →

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Protected: Project 2 controls 10/20/14

Posted on March 20, 2014 by admin

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Wednesday 03/19/14

Posted on March 19, 2014 by admin

10:20a – 11:30p PH project Simulations / model description Improved behavior from PH simulation \Data\2014-03-17_PhSim\PhCell_CappingModel4 Main Figures wrote new scripts to graph the data in figures 1-3 quickly. Useful for changing binning intervals, fonts / colors / sizes etc easily. … Continue reading →

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Protected: Oligo-Secondaries figure

Posted on March 19, 2014 by admin

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Tuesday 03/18/14

Posted on March 18, 2014 by admin

9:30a – 6:30p, 11:00p – 1:00a Oligo Secondaries work out new strategy for figure need simulations of binding density Chromatin Polymer simulations Goal: illustrate effect of localization counts * wrote new basic StickyPolymer simulation function * wrote some new polymer … Continue reading →

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