Exact(3)
Prediction of MoRFs is performed for each amino acid in the input chain.
Schlessinger and Rost (2005) proposed a neural network model that uses evolutionary information and solvent accessibility that are generated and predicted from the input chain, respectively.
The NNcon method limits the maximum size of the input chain to 800 residues, and consequently, 21 chains from the benchmark dataset that were longer than 800 were removed.
Similar(57)
For each residue in a given input chain, we include information about the residue itself and its neighbors.
Key advantages of RAPID are speed (prediction of an average-size eukaryotic proteome takes < 1 h on a modern desktop computer); sophisticated design (multiple, complementary information sources that are aggregated over an input chain are combined using feature selection); and high-quality and robust predictive performance.
In our analysis, we discarded the input side-chains from native complexes in the bound runs, but kept the side-chains from the free receptor structures in the unbound runs.
We note that in our benchmarking analysis, we discarded the input side-chains from native complexes only for docking to bound receptor structures, but not to free receptor structures (as this information is available in a real world scenario): including side-chains of unbound receptors was shown in our previous docking studies to improve protocol performance [26], [43].
Ciccone, A. Input chains and industrialization.
In this paper, we define the outage probability as the probability that the SIR at the input of the receiver chain is falling below a given threshold value.
In order to efficiently execute the first stage of the beamforming in the Pulse-Doppler radar signal processing chain, the input data cube must be aligned along Nc dimension to increase the locality of memory accesses and avoid making jumps when reading the data from the memory.
The complete procedures for identifying interacting interfaces for a query protein are as follows: (1) For a query protein chain, the input data (homologues of the query, 150 at most) fed to WildSpan was obtained by performing PSI-BLAST [ 29] against Swiss-Prot database [ 30] using BLOSUM62 substitution matrix and an E-value cut-off of 0.01.
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