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choderalab / assaytools

Modeling and Bayesian analysis of fluorescence and absorbance assays.
http://assaytools.readthedocs.org
GNU Lesser General Public License v2.1
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[WIP] Add example sequential titration assay data #126

Open jchodera opened 6 years ago

jchodera commented 6 years ago

This PR adds some preliminary analysis of sequential titration assay data from @MehtapIsik.

We may not want to add all of this data, but it may be easier than trying to extract some partial data.

This Jupyter notebook contains some exploratory data analysis and should be useful in feeding the data to assaytools for fitting binding affinities.

Lucelenie commented 6 years ago

@MehtapIsik @steven-albanese I tried to plot the data from the sequential titration test that I ran last week. You can find notebook here. Also, here is the layout with the p38, buffer and p38 boiled samples: screen shot 2018-03-13 at 2 41 37 pm

MehtapIsik commented 6 years ago

@Lucelenie I have just realized well H12 in your plate layout has protein. It is not just containing buffer. That can explain why H12 (dispense priming well for D300) doesn't have a linear fluorescence increase.

jchodera commented 6 years ago

Hm. The data looks like there isn't really a binding signal of any sort in there. Which ligand(s) did you use?

Lucelenie commented 6 years ago

Bosutinib

steven-albanese commented 6 years ago

We think there might have been an issue with dispensing the ligand. We're going to make a new stock of bosutinib and redesign the experiment a bit

steven-albanese commented 6 years ago

@Lucelenie doesn't think this was an issue this run, but I'm also concerned that there's a problem with the infinite, which has been having trouble reading

Lucelenie commented 6 years ago

I found out that I made a mistake when placing the stock plate on the EVO. Because of this mistake, bosutinib wasn't dispensed. I will run this test again.

Lucelenie commented 6 years ago

@MehtapIsik @steven-albanese screen shot 2018-03-19 at 11 04 04 am Here is the plate layout for the latest test experiment. Also, you can find a notebook of the data here.

jchodera commented 6 years ago

Should this branch be merged?