Sentence examples for infer gain from inspiring English sources

Another method, PARADIGM-Shift was developed to utilize pathway-level information along with other features (such as expression, methylation, copy number) to infer gain and loss of function for mutations.

In the consecutive step, the resulting simulated phyletic pattern and the species tree (only topology) are given as input for both the maximum parsimony and the stochastic mapping methods, which infer gain and loss events for each gene family and for each branch.

Estimates of sex-biased gene expression in D. ananassae were used to infer gains or losses of sex-biased expression within the melanogaster group.

Here we only infer gains of salt tolerance that lead to extant salt tolerant species, as our aim is to infer the minimum number of independent gains needed to explain the extant phylogenetic distribution of halophytes.

tRNA genes that map to the same region in D. melanogaster are assembled into orthologous sets of tRNA genes, from which we infer gains and losses of tRNA genes on each branch of the species tree.

Drosophila ananassae is phylogenetically situated at the split of the melanogaster subgroup from the melanogaster group (Drosophila 12 Genomes Consortium et al. 2007; Larracuente et al. 2008) and was used to infer gains or losses of sex-biased expression within the melanogaster group.

Inferring gain and loss events along lineages was made difficult by the lack of congruence between the gene tree and the species tree.

We also demonstrate that the Amaranthaceae has relatively high numbers of species per inferred gain, indicating a more conserved pattern of salt tolerance evolution compared to the other families in the analysis.

To estimate the NoTO for each family subtree, we inferred the minimum number of gains and losses of salt tolerance required to explain the observed topological distribution of halophyte tips, and then calculated the average number of halophyte tips per inferred gain.

However, although the developers of the stochastic mapping approach had performed initial performance evaluation (Nielsen 2002; Huelsenbeck et al. 2003), a rigorous comparison between maximum parsimony and the stochastic mapping for the task of inferring gain and loss events to specific branches is still missing.

We also demonstrated that ExonFinder is capable of inferring gain- and loss-of-ASV events, which may be valuable for evolutionary studies in the era of transcriptomics.