Neighbor joining analysis

Neighbor joining Neighbor DNA/Protein Neighbor joining analysis... 

Figure 1 Phylogenetic relationship of the Cordyceps fungi based on nuclear rDNA sequences. A total of 3014 unambiguously aligned nucleotide sites were subjected to neighbor-joining analysis. Bootstrap values obtained with 1000 resamplings are shown at the nodes. Host organisms are presented in parentheses. Names of the clades are shown on the right side.

GPCR phylogenetic analysis partial neighbor-joining tree of the rhodopsin receptorlike family (A) from Joost andMethner (Genome Biol., 3 research 0063.1-0063.16,2002. http //genomebiology.com/ 2002/3/11/ research/0063). Detailed receptor names are provided in the additional data file 1 of the reference. 

Fig. 12.3. Subclasses of the CUE domain family. All human and budding yeast members of the CUE family have been aligned and subjected to neighbor-joining dendrogram analysis. In proteins having multiple domains, the domain number is indicated in square...

The nucleotide sequences of gastrin precursors in Phylip format are given below. Preform phylogenetic analysis by neighbor joining method using the Kimura two-parameter model. 

Figure 5.2 Neighbor-joining tree of sequence similarity in the 7TM domains of human monoamine-related GPCRs. The receptors are coded according to the SwissProt nomenclature scheme orphan receptors are coded with the prefix GPR followed by an index number. Distance corresponds to percent sequence identity, scale is indicated by a 5% bar. The tree is rooted by outgrouping the node of the H, and muscarinic receptors. The numbers on the branches are the result of bootstrap analysis (1 OCX) replicates). For further details see [60].

Based on the initial results above and the desire to create a universal bacterial assay, we decided to limit further analysis to fragment masses derived from only the Lane-AB or Lane-BC amplicons. Figure 43 contains a neighbor-joining tree of all explicitly named... 

FIGURE 4.3 Neighbor-joining tree of all explicitly named NIAID Category A, B, or C bacterial pathogens as resolved by base-specific fragmentation of the Lane-AB amplicon and spectral distances derived from the presented coincidence function Separation of some of the unresolved clusters may be improved by further mass spectrometric analysis of the Lane-BC sequence region. 

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