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The estimated loss rates, defined on a per-element basis, reflect physical losses by either natural selection at the host level or large-scale DNA-level excision processes, including intra- or interelement recombination (which generates solo LTRs), and do not include potential mutational inactivation of the retrotransposon machinery by point mutations that otherwise leave the element intact.
This approach enabled us to recover mutations that otherwise were homozygous lethal to the organism.
The shared SNPs presumably arose before the migration of modern humans out of Africa and are therefore depleted from recent deleterious mutations that otherwise could distort selective signals.
This constraint reflects a purifying selection force, which prevents the fixation of mutations that otherwise would disturb protein structure or function [ 1, 2].
A few patients with MYH7 mutations that otherwise cause distal myopathy could be classified as having limb-girdle syndrome or scapuloperoneal myopathy thus overlapping with the clinical features of myosin storage myopathy [ 44].
In individuals with 22q11.2 deletions this haploinsufficiency could increase susceptibility to the effects of protein-coding mutations that otherwise may be tolerated, including those in genes that are involved in schizophrenia in the general population (Brzustowicz and Bassett 2012).
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We therefore assume that the DEB025res genome lowers CypA dependence by acquiring a conformational inversion mediated by the D320E mutation, that otherwise is supported by CypA.
Although many caveats exist in the study of activating mutations, B-SIFT provides a starting point by finding mutations that would otherwise have been missed or indistinguishable from the deleterious mutations that comprise the majority of currently identified functional mutations.
This is achieved by introducing a filter that targets highly recurrent mutations that would otherwise distort the network.
The use of temperature-sensitive alleles has the advantage of being able to perform mutagenesis on homozygous lines of mutations that are otherwise lethal.
Abundant gene conversion, likely initiated by DSBs, appears to be a mechanism to eliminate deleterious mutations that may otherwise accumulate in the absence of meiotic recombination [ 15].
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