Tag Archives: modeling

Protected: sna perturbations update

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Protected: snail modeling update

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Sunday 08/18/12

9:40 A-10:20A, 5:00PM-7:00P snail O/N confocal z-offset incorrect.  Should use nuclei to determine top surface, low snail expression levels are an unreliable indicator.  sim 488 channel slightly saturated.  Reconfigured positions 4-13, started run again. 5P reconfiguring snail simulations, see post. … Continue reading

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Friday 08/17/12

10:00 A  – 8:45P, 10:00P-11:45P Etching slide 1 from 6/25 in situs, 1 Dfd-dig, tub-bio.  25 min etch. Mostly over-etched.  setting up for STORM imaging of remaining sections:. more snail simulations. Approach 1, see if kicking in a twist activation of … Continue reading

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Thursday 08/16/12

10:10 A-4:30P, 9:00P – 11:40 P (8A-10A volleyball practice) etching sample S7 from 6/25 (coverslip 2 from last night).  sample disolved clean away at 55 min.  (previous sample over-etched at 1hr:30, sample before that nicely etched at 1 hr 30, … Continue reading

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Wednesday 08/15/12

9:45 A – 6:50P, 8:00P – 11:20PM Finish O/N confocal run on slide m105, save data running simulation on full size embryo of snail promoter mutants.  Strong preference for patches.  Earlier activation of repressors supports conditions that create broader snail … Continue reading

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Tuesday 08/14/12

9:15 A – 7:00 P, 8:30 P – 11:20 P Finish O/N STORM run of Antp/Tub bead images z-calibration first iteration looks horrible.  May need new few guess parameters.  Attempting multiple iterations. simulating snail patterning with different promoters.  Need substantial … Continue reading

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Friday 07/22/11

9:00A -12:30P mRNA counting (see post) numbers synthesis rates, decay modeling sent to ML Discuss merits of mathematical formulation of snail boundary bistability with Jacques. Proofs back for PNAS paper on gap-shadows. Fix yellow shade in fig 2D legend, review … Continue reading

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Protected: mRNA snail numbers and models

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