Sentence examples for based on multiple alignment from inspiring English sources

Prediction tools such as PolyPhen [13] and SIFT [14] are primarily based on multiple alignment and amino acid substitution penalties.

To explore evolutionary conservation across different species, we measured for each polymorphic position the conservation score of the Genome Browser website (assembly March 2006, http://genome.ucsc.edu/), based on multiple alignment of 17 vertebrate species [34].

Finally, clustering analyses of phage integrase genes based on multiple alignment patterns reveal they group in five lineages, all possessing a tyrosine recombinase catalytic domain, and phylogenetically close to other integrases found in phages that are genetic mosaics and able to perform generalized and specialized transduction.

The validity of these predictions was further enhanced by comparison, based on multiple alignment and structural information, to published orthologous counterparts.

On our simulated protein families, this approach led to even better results than the classical approach based on multiple alignment and likelihood.

Phylogenetic (or gene) tree analysis was based on multiple alignment using four different methods for tree reconstruction: Neighbor-Joining, Maximal Parsimony, Minimum Evolution and Bayesian Inference [ 28, 29] The first three methods were applied using MEGA 4 [ 30- 32].

Based on multiple alignments instead of pairwise alignments, our RNAz-based approach has a significantly increased sensitivity and specificity.

A Simple-Probe® was designed based on multiple alignments of 19 CCHFV partial M segment sequences that included reassorted and non-reassorted isolates from two phylogenies.

In this study, the primers were designed based on multiple alignments of trans-2,3-enoyl-CoA reductase (ECR) gene sequences from Arabidopsis thaliana and other plants, and the full-length cDNA, here designated BnECR, and the corresponding genomic sequences were isolated from Brassica napus using rapid amplification of cDNA ends method (GenBank accession numbers FJ899705 and FJ899705).

The predictions on sRNA content made with Rfam, based on multiple alignments, are combined with references of previous experimental and computational studies validating these findings [24] [26].

For each RMEL gene, the RNA structure prediction was based on multiple alignments of five primate sequences (Homo sapiens, Pan troglodytes, Pongo pygmaeus, Macaca mulatta and Callithrix jacchus).