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This repository contains implementations and illustrative code to accompany DeepMind publications
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Question: DNN Rule Extraction Study focusing on Alpha Fold #167

Closed HalitTalha closed 3 years ago

HalitTalha commented 3 years ago

Hi there,

I'm not sure if raising an issue here is the best way to reach out for my question but here it is: I'm planning to do a research on NN rule extraction focusing Alpha Fold's performance on CASP13 dataset. Briefly speaking, I just want to know what would you think of such a study? Maybe DeepMind has something similar going on? Any response is appreciated.

Thanks in advance. Regards.

Augustin-Zidek commented 3 years ago

Hi,

we are not planing to do such analysis on the CASP13 distogram neural network since AlphaFold 1 (used in CASP13) has been superseded by AlphaFold 2 (used in CASP14).

However, the distogram neural network behaviour analysis might be relevant to the study you are proposing: It is included in the AlphaFold Nature paper (https://rdcu.be/b0mtx), see “Interpretation of distogram neural network” in the Methods section and extended data figures 9 and 10.

HalitTalha commented 3 years ago

Excuse my ignorance, is AlphaFold 2 open-source?

Augustin-Zidek commented 3 years ago

No it isn't -- we are working on a paper on AlphaFold 2.