Predicting Amino Acid Substitution Probabilities Using Single Nucleotide Polymorphisms
نویسندگان
چکیده
منابع مشابه
Patterns of nucleotide and amino acid substitution
So I’ve just suggested that the neutral theory of molecular evolution explains quite a bit, but it also ignores quite a bit. The derivations we did assumed that all substitutions are equally likely to occur, because they are selectively neutral. That isn’t plausible. We need look no further than sickle cell anemia to see an example of a protein polymorphism in which a single amino acid differen...
متن کاملPatterns of nucleotide and amino acid substitution
So I’ve just suggested that the neutral theory of molecular evolution explains quite a bit, but it also ignores quite a bit. The derivations we did assumed that all substitutions are equally likely to occur, because they are selectively neutral. That isn’t plausible. We need look no further than sickle cell anemia to see an example of a protein polymorphism in which a single amino acid differen...
متن کاملDiscriminative modelling of context-specific amino acid substitution probabilities
MOTIVATION Protein sequence searching and alignment are fundamental tools of modern biology. Alignments are assessed using their similarity scores, essentially the sum of substitution matrix scores over all pairs of aligned amino acids. We previously proposed a generative probabilistic method that yields scores that take the sequence context around each aligned residue into account. This method...
متن کاملDiscriminative modeling of context-specific amino acid substitution probabilities
2 THE DISCRIMINATIVE MODEL SPACE CONTAINS THE GENERATIVE MODEL SPACE In the following we will show that the generative model with any set of parameters is equivalent to the discriminative model with an appropriately chosen set of parameters. In other words, the discriminative model with these particular parameters predicts the same context-specific substitution probabilities P (a|Ci) as the gen...
متن کاملPredicting the tolerance of proteins to random amino acid substitution.
We have recently proposed a thermodynamic model that predicts the tolerance of proteins to random amino acid substitutions. Here we test this model against extensive simulations with compact lattice proteins, and find that the overall performance of the model is very good. We also derive an approximate analytic expression for the fraction of mutant proteins that fold stably to the native struct...
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ژورنال
عنوان ژورنال: Genetics
سال: 2017
ISSN: 1943-2631
DOI: 10.1534/genetics.117.300078