Sentence examples for based upon the alignment from inspiring English sources

Based upon the alignment, a phylogenic tree was created (Figure 2C).

Then, based upon the alignment, the distance matrix determines the distance relationships between the two proteins.

This filtering method underestimates the number of genes with alternative regions in 5'UTRs but yields a high quality dataset based upon the alignment of full-length mRNAs with protein and start codon annotations.

Sites in the H7 HA alignment were converted to H3 numbering prior to being reported, as is the convention for influenza, and numbering was based upon the alignment of Nobusawa et al. [ 99] (sites numbered -17 to -1 for the signal peptide region and 1 to 329 for HA1).

Figure 6 is based upon the GBLOCKS alignment.

The tree depicted is based upon the full alignment and is rooted using the two cnidarian Msx sequences.

These concatenation-derived trees were compared with the individual gene trees by first pruning the concatenation-derived tree to the same taxa as the gene tree using DendroPy (Sukumaran and Holder 2010) and then retrieving the per-site log likelihoods of both trees using RAxML based upon the gene alignment and the same model of evolution (WAG + Γ + F).

However, even though this study incorporate the analysis of the rate and asymmetry in gene expression and polymorphisms, this study didn't improve the assessment of asymmetry in sequence evolution since the methodology used in this study is still based upon the sequence alignment.

This scoring matrix is derived by a similar procedure as the BLOSUM matrices (Henikoff and Henikoff, 1992 , 1993 are done, based upon the structure alignments of structurally similar protein pairs.

The consistent outcome of various phylogenetic methods based upon this alignment shows that Prod1 arises in a clade comprising only non-mammalian proteins.

For each sample, reads were assigned to a genotype based upon the highest quality alignment.