Anders Eriksson

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Motion blindness in T4/T5 using Optomotor Response

on Tuesday, March 31st, 2020 1:48
T4/T5 driver line was crossed TNT line to test for motion blindness using the optomoter response assay. While the controls respond perfectly fine to the rotating striped arena the T4/T5 flies are seemingly unaware of it. Sample size for T4/T5 flies is still a bit low. However, as this is only a trial experiment for the drosophila course I consider it successful.

Making sense of dwelling data

on Tuesday, March 24th, 2020 12:54

Mean or median?


A highly hypothetical scenario of how the distribution of dwelling times could be. Even if unrealistic, it still illustrates the problem of using median instead of mean.

Plotting the dwelling times as means

An example fly of how the dwelling times are distributed over the different periods.

Grouped analysis of dwelling times

Cumming estimation plot

Used the R package Dabestr to plot the estimation statistics. The effect size and 95% CIs are plotted a separate axes

Optomotor response works consistently with old platform

on Friday, March 20th, 2020 3:23

The old platform works a lot more consistently compared to the new one. Unless major improvements are seen I do not see any reason to update it.

Updates on optomotor response software

  • Added a timer
  • Previous version generated faulty xml files. This bug has been squashed (see image below)
  • Display window of the software now also prints which direction the striped arena turns
The highlighted red areas are the ones that caused issues. Contingency has also been added to the xml file from the optomotor response (not shown). This did not cause any errors when running the DTS analysis Rscript but I thought it looked nicer having it there.

New optomotor platform not yet optimized

on Monday, March 16th, 2020 1:42

A new platform have been designed for the optomotor response. It is placed on a pivot with the axis attached on the back. In contrast to the previous design witch only monitored movement in the left/right direction, the new design in theory allows the fly to rotate the platform.

Optomotor evaluation

on Wednesday, February 19th, 2020 1:51

Optogenetic T-maze


The figure below contains the separate data from both Emer, and Ferruh/Kader. Both data sets have been merged too.

Fly linesample size
Gr28 ATR60

Dwelling time

on Monday, February 3rd, 2020 1:41

The schematic drawing is an example. The method that is currently used to calculate the dwelling time is excluding times that are 50 ms. Each dwelling time is getting an additional 50ms to compensate for the transitional time loss (dashed line in schematic drawing). The chart on the right side is the total time for each period when adding negative and positive dwelling times.

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T-maze screen with yellow light


Fluorescence histogram

on Monday, January 27th, 2020 1:48

Proof of concept. I was playing around with ImageJ and found that there is a built in function already that does analyze the fluorescence intensity. I am just not sure exactly what it tells us. This is only as far as I have gotten yet.
The image below is the one I used.