Monthly Archives: June 2014

Monday 06/30/14

Posted on June 30, 2014 by admin

10:00 am – 5:45 pm, 10:00 pm – 1:15 am Meetings group meeting (see notes) journal club (see notes) discuss probes with George setting up meeting with AG to discuss code discuss with XZ Brian’s paper and revisions project 2 … Continue reading →

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Journal Club: B-Actin mRNA in neurons (Singer)

Posted on June 30, 2014 by admin

Science Basic observation chemical stimulation of neuron, see more B-actin mRNA in axon (2x) also see more B-actin mRNA following gentle protease treatment — propose mRNA was masked do transcription controls and trafficking controls block neural stimulation pathway, also don’t … Continue reading →

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Protected: lab meeting 06/30/14

Posted on June 30, 2014 by admin

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Sunday 06/29/14

Posted on June 29, 2014 by admin

10:30 am – 3:00 pm, 6:00 pm – 7:00 pm, 8:30 pm – 11:30 pm STORM finish imaging C11 Cell prep passage newly plated cells to 75cm2 flask fix cells, prep cells for staining Probe making run RT PCR for … Continue reading →

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Saturday 06/28/14

Posted on June 28, 2014 by admin

10:45 am – 5:30 pm, 9:00 pm – 11:50 pm Small tasks restart data copying after computer freeze last night (GPU computation abort failed) restart sticky polymer simulations STORM imaging imaging sample C10 (blue 33 kb vg locus). Conv images … Continue reading →

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Friday 06/27/14

Posted on June 27, 2014 by admin

10:45 am – 11:00 pm Prep for meeting with XZ: model summaries rosettes actually have very complicated scaling generally sticky nodes seems to scale better. Conclusions from meeting with XZ First priority: get at least a first look at the … Continue reading →

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Thursday 06/26/14

Posted on June 26, 2014 by admin

9:45 am – 1:30 am Chromatin Modeling continued Checking my simulation results from the polymer models I was running last night. Simulation Results BBv1 no attractive potential does give expected scaling: Adding an attractive potential does increase clustering. Has more … Continue reading →

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Wednesday 06/25/14

Posted on June 25, 2014 by admin

9:30 am – 5:00 pm, 9:00 pm – 12:15 am PH project replotting all histograms — no more collecting all the big stuff into the last bin, this was confusing. made new figure-producing figs (actually just histograms, the images are … Continue reading →

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Welcome to my lab notebook Welcome to my lab notebook. This is not a blog, which is written primarily to communicate information to other people, it is a lab notebook, which is written for me to make notes about the … Continue reading →

Posted on June 25, 2014 by admin | Comments Off on Welcome to my lab notebook

Tuesday 06/24/14

Posted on June 24, 2014 by admin

10:00 am – 12:45 am More simulation troubleshooting Experimenting with weaker attractive forces energy = (“index*epsilon * .000000001 * (step(r-rm)*(r-rm)^4 * (1- step(r-2*rm))+ (rm)^4*step(r-2*rm));” “index=index1*index2″) reasonable scaling 10 fold stronger bonding: “sticky8” simulation energy = (“index*epsilon * .00000001 * (step(r-rm)*(r-rm)^4 … Continue reading →

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