Introduction to Protein Structure

By G. Meisenberg, William H. Simmons. 2012

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Maximum entropy models for antibody diversity (2009, background): “But not all of the limitations are historical—randomly chosen sequences will not fold into stable, compact structures [2, 3], and carrying out specific functions places yet more requirements on the sequence.”
Deep learning in bioinformatics (2016, background): “In addition, extracted features from sequences such as a position specific scoring matrices (PSSM) [78], physicochemical properties [79, 80], Atchley factors [81] and one-dimensional structural properties [82, 83] are often used as inputs for deep learning algorithms to alleviate difficulties from c”
Enhancing Evolutionary Couplings with Deep Convolutional Neural Networks (2017, background): “C), whereas α -helical motifs consist of grid-like couplings separated by three to four residues (the rise of a helix) (Figure 6, inset E) (Branden, 1999).”