Category Archives: Microscopy

Protected: multipart transcription foci

Posted on March 27, 2011 by admin

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Protected: new hb analysis

Posted on March 25, 2011 by admin

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Protected: Transcription kinetics

Posted on March 23, 2011 by admin

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MP05 MP10 comparison

Posted on March 19, 2011 by admin

Summing up results from dot counting: From fxn_regionvar, tight boundaries (to remove edge effects) (mostly thresh = .6) MP10 emb, snail mean, var,  reporter mean, var 06, 247, 23,  155, 17 08 206, 25, 129, 17 07 222, 25,131, 18 … Continue reading →

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3D imaging

Posted on March 17, 2011 by admin

3D imaging comparison of effect of activator concentration on molecular noise.  Assayed by cell-cell variation in total concentration.

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Analyzing effect of increasing Gal4

Posted on March 15, 2011 by admin

Images with high variability have high overall average expression rate in MGa2x, images with more uniform expression have lower levels.  The reverse is true for MGa1x. MGa1x          

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Image processing

Posted on March 15, 2011 by admin

Working on analysis for MGa1x vs 2x. Shown left, mRNA densities for MGa2x.  Internal control for MGa2x achieved by measuring expression.     With Mga 1x, compare ush(?) intronic probe as a measure of background.  Only 0-5 dots found per … Continue reading →

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Image processing

Posted on March 14, 2011 by admin

Fixing automatic dot counting code: z-sections: small number of sections gives correct assignment.  Dots that extend into upper layers (line extends to the left) are not tracked, as they are marked when they first entered those layers.  Dots that extend … Continue reading →

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optimizing image processing coding

Posted on March 8, 2011 by admin

Improving Efficiency and Speed of dot finding code.  (with upwards or 0.3 million dots segmented in a single stack, some substantial changes are necessary). Profiler on optimizing_dotfinding caught bug: needed to increase maxdots.  Now set automatically. Slow steps in CheckDotUpDown: … Continue reading →

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Image Processing coding

Posted on March 6, 2011 by admin

Matlab BUG FOUND !! if given an input of type single or double im2bw thresholds at x>T = 1 and x <T  =0, regardless of the range of the input variable x. T is however restricted to be between 0 and 1. … Continue reading →

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