Monthly Archives: May 2015

Protected: MERFISH image processing 05/20/15

Posted on May 20, 2015 by admin

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Nuclear Structure and Dynamics 2015 Abstract

Posted on May 20, 2015 by admin

Nuclear Structure and Dynamics http://events.embo.org/15-nucleus/ Super-resolution Imaging of Chromatin Nanostructure Links Epigenetic State and 3D Genome Packaging Metazoan genomes are packaged at multiple scales, and regulation of this spatial organization may play an important role in development and cell fate … Continue reading →

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Protected: Tuesday 05/19/15

Posted on May 19, 2015 by admin

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Monday 05/18/15

Posted on May 18, 2015 by admin

9:45 am Chromatin Paper writing first draft of letter to editor working on probe table still need to make primer table. MERFISH working on revised analysis pipeline Personal stuff looking at apartments

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Sunday 05/17/15

Posted on May 17, 2015 by admin

11:00 am – 1:00 am Chromatin manuscript computed p-values for overlap figures. Added values to fig caption maybe should go into main text when I get it back from Jeff p-values for overlap fraction for reference Repressed-Active interact less than … Continue reading →

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Friday 05/15/15

Posted on May 15, 2015 by admin

9:30 am – 11:55 pm New Data analysis tools generalized Hi-C plotter with Bogdan now does triangles too uploaded new HiC data. Looks much smoother, replicates with different enzymes look very similar. Chromatin paper working on manuscript revisions discussed plans … Continue reading →

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Thursday 05/14/15

Posted on May 14, 2015 by admin

9:00 am – 8:30 pm morning 9 – 10:45am chat with HC email Geoff, congrats and follow up email DB about potential collaboration create 1 page pdf of recent publication info for K99 update Chromatin paper methods revision working on … Continue reading →

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Wednesday 05/13/15

Posted on May 13, 2015 by admin

9:00 am – 10:15 pm Geoff’s Defense (9:30 am – 11:00 am) see post short follow-up discussion with BB and GN To Do Travel reimbursements write to XZ about LM travel schedule (done) Chromatin Paper Built new composite data structure … Continue reading →

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Geoff Fudenberg Thesis Defense

Posted on May 13, 2015 by admin

Thesis Defense in Biophysics 05/13/15 Intro many different text book picutres of mitotic chromosome middle scale: rosettes? spirals of spirals? Accordion coils? many functional characterizations of the 1D genome sequence Hi-C method explained. had to develop appropriate normalization pipeline now … Continue reading →

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Tuesday 05/12/15

Posted on May 12, 2015 by admin

Chromatin Paper updated PlotGenes to fix issues with arrowheads. Much nicer now. applied in Extended Data Fig 3. Others still need updating. Working on Extended Data Fig 6: illustrating differences between active domains of similar size. Paper To Do list … Continue reading →

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