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While the overall particle morphologies are similar, the reconstruction resulting from our alignment displays much more uniform densities and clearer particle structures.
Figure 5 Location of the centers of mass of single cross-sections for each projection angle (blue) and the least squares solutions to fit the viable paths (red) given by Equation 3. The results from cross-correlation for two cross-sections are given in (a, c), and the results from our alignment method for the same cross-sections are shown in (b, d).
The functional predictions derived from our alignment are consistent with genomic position and gene expression data.
We removed these insertions from our alignment prior to calculating the tree.
From our alignment it is evident that Plasmodium, Leishmania, Trypanosoma, Methanocaldococcus, Pyrococcus and Giardia exhibit slightly longer loops than that present in higher eukaryotes.
Since Targetscan over predicts miRNA targets, we compared networks generated with genes predicted by Targetscan with networks generated by genes from our alignment data.
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To determine to what extent ErbB3 contributes to the divergence of the ErbB family, we ran the BPPS procedure by removing ErbB3 sequences from our alignments.
All these contaminant sequences were removed from our alignments.
We did not mask repeated elements from our alignments.
For this purpose we have selected from our alignments 13 haplotyping candidate regions (HTCRs) within DEFB of NA12716 and NA12760.
To precisely calculate the mutational preference in nupts, all ambiguous sites and gaps were removed from our alignments.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com