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Grouping all samples into a single-sampling session scheme and using individual genotypes that were identified from one (initial capture) or more (recaptured) samples, we calculated a genetic capture-recapture estimates using the maximum likelihood two innate rates model (ML-TIRM) estimator implemented in the software Capwire (www.cnr.uidaho.edu/lecg) [27].
Therefore, we genotyped toxic maculopathy patients and controls for ten common AMD risk variants and calculated a genetic risk score according to Grassmann et al. [ 18].
In the second score, we calculated a genetic risk function by using weights derived from the risk coefficient for each gene based on odds ratios reported in previous meta-analyses (web table A). 15 16 18 32 Risk estimates for each allele were available for 18 genes, and we multiplied these coefficients by 0, 1, or 2 according to the number of risk alleles carried by each person.
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This protein alignment was then used to calculate a genetic similarity matrix including all loci by using MEGA version 3.1 [ 98] with a Poisson correction of the distances and pairwise deletion of the alignment gaps.
For a similar rate of selection on adults, data from S. partitus resulted in a greater predicted reduction in relative survival in response to selection on adults, although we acknowledge that our indirect method of calculating a genetic covariance function for S. partitus (Appendix S4) introduced additional uncertainty in our predictions.
These data were used to calculate a genetic dissimilarity matrix using the simple matching dissimilarity index (dij) between pairs of accessions (units) [ 50]. d ij = 1 - 1 L ∑ l = 1 L m l 2 where dij represents the dissimilarity between units i and j, L represents the number of loci, and ml represents the number of matching alleles between i and j for locus l.
They calculated an additive genetic risk score and compared Alzheimer's disease status prediction performance of age, gender, and the apolipoprotein E (APOE) ε4 allele using logistic regression with and without the additive genetic risk score.
As in the classical approach for modeling base groups, we assigned base animals to groups and calculated a matrix of genetic contributions Q using standard methodology.
Furthermore, inheritance of CDVR has been calculated, supporting a genetic basis for CDVR [ 9].
Local genomic diversity was also calculated as a genetic distance matrix using sliding bins that included three adjacent RFLP markers along each rice chromosome.
The pooled genetic association was calculated by a genetic model-free approach, which does not assume that the underlying genetic model is known in advance but still makes use of the information available on all genotypes.
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