Polarizable Amoeba Force Field Metadynamics with Minimization Predicts Missing Protein Loops
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DOI: 10.1016/j.bpj.2016.11.332
Abstract: Computational methods developed to find the global free energy minimum of amino acid sequences are increasingly successful, but limitations in both accuracy and efficiency remain. Optimization algorithms are typically focused on proteins of modest size… read more here.
Keywords: force field; energy; missing protein; protein loops ... See more keywords
Evaluating network-based missing protein prediction using p-values, Bayes Factors, and probabilities
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DOI: 10.1142/s0219720023500051
Abstract: Some prediction methods use probability to rank their predictions, while some other prediction methods do not rank their predictions and instead use [Formula: see text]-values to support their predictions. This disparity renders direct cross-comparison of… read more here.
Keywords: evaluating network; prediction methods; prediction; missing protein ... See more keywords
Evolution of Protein Functional Annotation: Text Mining Study
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DOI: 10.3390/jpm12030479
Abstract: Within the Human Proteome Project initiative framework for creating functional annotations of uPE1 proteins, the neXt-CP50 Challenge was launched in 2018. In analogy with the missing-protein challenge, each command deciphers the functional features of the… read more here.
Keywords: protein challenge; functional annotation; challenge; missing protein ... See more keywords