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COS597N MLSB Week 2 Pre-lecture Questions
Readings:
1. Senior, A.W., Evans, R., Jumper, J. et al.
Improved protein structure prediction using potentials from deep learning.
Nature 2020.
2. Ingraham, J. et al.
Learning Protein Structure with a Differentiable Simulator.
ICLR 2019 Oral.
Due before class on 9/14.
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Q1: Protein structure terminology: What is a C_beta carbon? What are torsion angles?
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Q2: In Senior et al, what is the loss function for neural network training?
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Q3: In Senior et al, why are distograms cropped for training?
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Q4: Describe one way the AlphaFold1 system is similar to prior work? (See paragraph 4 on related work in Senior et al.)
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Q5: Describe one difference between the model in Senior et al. vs. Ingraham et al.
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