Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

[WIP] Add example sequential titration assay data #126

Open
wants to merge 10 commits into
base: master
Choose a base branch
from

Conversation

jchodera
Copy link
Member

@jchodera jchodera commented Dec 3, 2017

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
Copy link
Collaborator

@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
Copy link
Contributor

@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
Copy link
Member Author

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

@Lucelenie
Copy link
Collaborator

Bosutinib

@steven-albanese
Copy link
Member

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
Copy link
Member

@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
Copy link
Collaborator

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
Copy link
Collaborator

@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
Copy link
Member Author

Should this branch be merged?

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

4 participants