In order to determine such segments we employed an algorithm for the assignment of segments with identical log2 ratios [ 39, 46] (Material and Methods) and calculated a z-score for each of these segments (hence, 'segmental z-scores').
For the chromosomal assignment of map segments, HAPPY markers were designed for fifteen chromosomally-assigned genes and mapped as described.
Taxonomic assignment of sequence segments'.
Although Hmx1 is a homeodomain protein, its late expression in a restricted set of neural and mesenchymal cell types across all cranial segments excludes a Hox-like role in the assignment of the segmental identity.
Incorrect assignment of the IGHD segment is very common (approximately 50%% of the cases); therefore, the IGHD assignment is omitted.
Any assignment of a helical segment of length less than or equal to four residues that is preceded and succeeded by other assigned segments is relabeled as a sharp turn.
In other words, if an ancestral assignment to a particular rainbow trout linkage group arm was given, and this arm demonstrated extensive homology to an Atlantic salmon arm segment, the assignment of the Atlantic salmon arm segment to the same ancestral grouping was verified.
Assignment of potential transmembrane segments (TMSs) was based on hydropathy, amphipathicity and similarity analyses as well as transmembrane β-strand predictions.
The assignment of signals to segment-pairs was switched after 10 runs, with the starting assignment counterbalanced across subjects.
