Sentence examples for constructing alignment from inspiring English sources

The difference is that the former uses MCL after constructing alignment graph while the latter uses it before aligning with the other PPI network.

AlignMCL takes the same strategy of constructing alignment graph as AlignNemo and are more scalable than AlignNemo, which has the best performance among other existing methods, including Match-and-Split, Mawish, NetworkBlast and Produles, in term of F-measure and coverage rate.

Secondly, searches for the site of phosphorylation were undertaken by constructing alignments of the 10 amino acid residues surrounding the conserved histidine from all predicted HKs in each replicon, and using the alignment to create a profile.

We hypothesized that in vitro construct alignment and stiffness might be enhanced in the midregion of the longer construct where the end effects of the posts on the bulk material (St. Venant effects) could be minimized.

The constructed alignment in Phylip format was used to calculate the Neighbor-Joining tree, as described above.

Those existing alignment-graph-based methods differ in the strategies taken to construct alignment graph and to clustering the alignment graph.

We extracted a conserved core Rab motif from the constructed alignment, partitioned it into sub-alignments according to the different initial sequence groups and constructed an HMM for each one.

The final alignment graph of the core housekeeping genes is available for download as Additional file 3. Figure 3 shows the largest connected component of this constructed alignment graph.

We then construct alignments of evolved sequences using each aligner with default parameters, and quantify sensitivity and positive predictive value, (PPV) for nucleotide pair and indel predictions.

To compare evolutionary divergence of PK genes with overall trends for other genes, we constructed alignments for control group of 7,711 well annotated orthologous human and mouse non-PK genes.

Consequently, we constructed alignments of the entire sequences for each subgroup using muscle [ 25].