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Update subsection: Structure-based prediction of bioactivity #1011

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0ut0fcontrol opened this issue Apr 2, 2020 · 2 comments
Open

Update subsection: Structure-based prediction of bioactivity #1011

0ut0fcontrol opened this issue Apr 2, 2020 · 2 comments

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@0ut0fcontrol
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Hi,
@mapleleaf-soar and I found AI models (e.g. AtomNet #56, ACNN #287) achieve high performance on DUD-E and PDBbind data sets because they learned the bias in the data sets. REF #1008

For example:

We found ACNN model can achieve "state-of-the-art" in PDBbind data set using ligand alone.😂
acnn

Others also found the bias in DUD-E. REF #1009 #1010

I believe the subsection Structure-based prediction of bioactivity need to be updated and try to work on it.

Any comments and suggestions are welcome!

@0ut0fcontrol 0ut0fcontrol changed the title update subsection: Structure-based prediction of bioactivity Update subsection: Structure-based prediction of bioactivity Apr 2, 2020
@agitter
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agitter commented Apr 7, 2020

Thanks for the suggestions. Would you like to write a short update to this section? Discussing bias in data sets and evaluations is definitely of interest to us.

I could likely review that pull request, though I can't promise a specific timeline. If you want to make a pull request, I recommend

@cgreene
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cgreene commented Apr 15, 2020

I agree with @agitter : a short update to that section as a pull request would be great - thanks - with the same caveats :)

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