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Because both random mutation and positive selection increase the expected proportion of mutated virions with every viral generation, the longer a host is infected, the greater the proportion of a particular mutant (Fig. 4) (15).
In the acquired immune system, DNA rearrangement, somatic mutation, and positive selection of the Ig and Tcr clusters provide unlimited diversity for defense against foreign antigens and for protection of our body from viral infections [2], [3].
As a result, the concordance between p53 mutation and positive immunostaining was only about 70% (Wang et al, 2004a, 2004b).
Although ω varies from gene to gene, ω = 1 and 3 can be regarded as "typical values" for neutral mutation and positive selection, respectively [ 3, 13, 67], which are observable from real datasets.
A long-standing model of cancer evolution is that tumor cells progress through stages via a reiterative process of expansion, genetic diversification by somatic mutation, and positive selection of subclones containing specific mutations.
We further performed a logistic regression analysis to contrast those with tumours containing both mutation and positive immunohistochemistry with tumours that had no evidence of either a p53 mutation or positive immunohistochemistry. Lastly, we compared the number of tumours with intensity staining and the number of tumours with invasive disease by the type of p53 mutation using a χ test.
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We analyzed co-variation between TDR-associated mutations and positive selected mutation using the CorMut package [ 20].
The alignments (nucleotide and translated amino acid sequences) were analyzed by using GeneDoc version 2.6001 (www.psc.edu/biomed/genedoc) and MEGA5 (35 ) to identify specific mutations and positive selection.
We tested to see (1) if we could detect accumulation of mutations and positive selection due to relaxed selection constraint or (2) if concerted evolution also homogenized all the homeologous copies.
Moreover, in vivo analyses revealed that this peptide displayed significant antitumour activity in mouse xenograft models of both human K-ras mutation negative and positive cancers.
Colonies were screened with the same assay used for the low frequency mutation detection and positive clones were sequence analyzed as above.
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