The phrase "analyses based on gene" is not correct in written English.
It should be "analyses based on genes" to refer to multiple genes or "analysis based on gene" if referring to a single gene.
Example: "The research included analyses based on genes associated with hereditary diseases."
Alternatives: "studies based on genes" or "evaluations based on gene data."
Classifying the genera of tribe Zonariae based on these morphological and anatomical characteristics is basically agreed to five clades in phylogenic analyses based on gene sequences.
Phylogenetic analyses based on gene order (fig. 3 A and B) were ambiguous.
This combination method was applied in all other presented analyses based on gene p-values if not indicated otherwise.
In contrast, analyses based on gene co-expression algorithms perform well across data types [ 7] and inspire working hypotheses since their results resemble hierarchical signaling networks.
Wahlenbergia is the sister to these three taxa in all analyses with varying levels of support (BS = 82, 60, 69, 99, 99, in the five analyses based on gene order changes).
Despite the key-role of plasmids in the prokaryotic world, the evolutionary dynamics of plasmids have been poorly explored, mainly because of the lack of extensive similarities between them, except for genes involved in replication and transfer functions [ 12, 13], which hampers classical phylogenetic analyses based on gene genealogy and synteny [ 14].
Conventional data analyses based on gene-by-gene statistical evaluation of differential expression can often miss this type of informative coordinated regulation of relevant sets of genes, because the fraction of genes individually satisfying the stringent threshold set to define statistically significant changes in expression is too low.
Phylogenetic analyses based on genes for photosynthesis as well as other markers such as rRNA and heat shock proteins are suggesting a number of alternative trajectories for the early evolution of pigment metabolism and organisation, but the widespread prevalence of horizontal gene transfer makes it difficult to agree the definitive scenario [ 13, 15].
This phylogenetic position of beavers was indicated already in earlier analyses based on nuclear gene sequences and transposon insertions [5], [7], [8].
The cross-sectional analyses based on duplog gene pairs could potentially result in biased distributions depending on the histories and physical properties of large families.
The problem thus remained unresolved, as further phylogenetic analyses based on mitochondrial gene sequences seemed to confirm the dipteran affinities of the Strepsiptera.
