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This element is predicted to be solid at room temperature, although it is so unstable that this quality is difficult to document.
In fact, out of the oxidation states the element is predicted to form, −1 is predicted to be the least common.
The 3-class SSE is predicted by PSIPRED [ 8] which is more accurate but contains less information, while the 8-class secondary structure element is predicted by RaptorX-SS8 [ 45] which is less accurate but contains more information.
The structure of BOX elements was generated from those elements with a canonical A1B1C1 sequence; notably, the folding of the boxB element is predicted to involve few interactions with the boxA and C elements that form the rest of the structure.
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Similarly, primers described in Panels D and E yielded the expected amplicon of size 205 and 264 bp respectively, as the IS element was predicted to be absent in the 5 clinical isolates,.
Very recently, this same TRP2 promoter element was predicted to bind an AP2 [29], and later observed to bind a T. gondii AP2, X1-3 (KimKim, personal communication, 2010).
One DRE-like element was predicted in the SiLEA14 promoter.
Because prestin expression is not affected in reeler mice, prestin's coding region, as well as any regulatory elements, is predicted to lie in the 17 kb that separate prestin's exon 1 from the end of the deletion.
All the raIS maps of the cyanobacteria and archaea are provided in a database that is accessible through an easy-to-use web interface [ 37]. 45 IS elements are predicted to be recently active in the 19 cyanobacteria, and they cover 11 IS families, while 104 IS elements from 12 IS families are predicted to be recently active in the 31 archaeal genomes.
For several A. asiaticus IS elements (ISCaa2, ISCaa9, ISCaa10, ISCaa14, ISCaa15; data not shown) stable hairpin structures within the first 50 bp of the IS elements are predicted, which might interfere with expression both at the transcriptional and the translational level, thus controlling the activity of these IS elements.
In general, EST specific alignments resulted in more positive RNAz predictions and the most structural RNA elements were predicted from both alignment sets [see Additional file 1, Figure S2].
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