The second method entailed an initial iterated PSI-BLAST [ 34] search against the NCBI nonredundant protein database to construct a position-specific scoring matrix for each exon variant.
To construct a position-specific scoring matrix, a PGP-BLAST search was carried out against 3 506 454 extracted peptide sequences, with an E-value threshold of 0.002 and four iterations.
Probabilities for all possible substitutions at each position are then computed to construct a position-specific scoring matrix, where each entry in the matrix represents the probability p ca of observing amino acid a in column c in the alignment.
Position-specific-iterated BLAST (PSI-BLAST) iteratively searches a protein sequence database, using the matches in round i to construct a position-specific score matrix (PSSM) for searching the database in round i + 1.
Since different multiple alignment software packages can yield very different alignments, use of the profile HMM approach is more robust than relying on a single multiple alignment to construct a consensus or a position-specific score matrix.
Nevertheless, in so far as they are or exhibit intelligible natures forms may, like a set of instructions or schematics, serve as models to be "looked at" (28a7, 29a3) by anyone who understands those natures and is in a position to construct a world in accordance with them.
In the training phase, also known as the offline or calibration phase, position-tagged RSS values over a wide range of positions are recorded and used to construct a model that relates RSS to position.
Bill Clinton's signal contribution to this debate was to construct a new and powerful centrist position.
For citizens in the exciting/terrifying position to construct a brand-new government, American-style democracy is one of many options.
Salviati, the persona of Galileo, has Simplicio, the ever astounded Aristotelian, make use of astronomical observations, especially the facts that Venus has phases and that Venus and Mercury are never far from the Sun, to construct a diagram of the planetary positions.
