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"Survival risk group prediction" was adopted to construct a functional genomic model that used the IPF prognostic predictor gene set to derive a prognostic index (PI) for each patient into either high or low risk for survival outcomes.
In this study, we constructed a functional genomic model that predicted survival in three independent cohorts of IPF patients.
The specific parameterization of the genomic model that results in the Bayes SSVS model is described below.
Using supervised and unsupervised analyses, we identified a set of IPF prognostic predictor genes and derived a functional genomic model that predicted high and low-risk IPF patients with high accuracy.
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More recent research has moved past permutations and toward multichromosomal genomic models that incorporate both linear and circular chromosomes.
A recent study by Yang et al. (2011) explored the use of parametric genomic models that specify genetic control of environmental variance in a swine production system.
The pea aphid (Acyrthosiphon pisum) is an emerging genomic model system that exhibits traits that cannot be studied in most classic model organisms but are common in nature, such as polyphenisms, cyclical parthenogenesis, host−plant specialization, viral transmission, and bacterial symbioses (Brisson and Stern 2006; International Aphid Genomics Consortium 2010).
We implemented a Bayesian genomic cline model that incorporates uncertainty in genotypic state inherent in next-generation sequence data [ 43], but is otherwise identical to the model described by [ 52].
Because little is known about ABC transporter functions in insects, we examined these proteins in T. castaneum, a well-established and powerful genomic insect model that is highly susceptible to systemic RNAi [ 22].
This genomic model assumes that, all the loci that affect the trait are in linkage disequilibrium (LD) with at least one SNP marker and thus marker genotypes can be used as predictors for breeding values.
These studies are congruent with the functional profile of our IPF genomic model suggesting that suppression of the immune system with medications such as prednisone and azathioprine may worsen the clinical course for IPF patients whose immune systems are already down-regulated.
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