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Multiple sites of CEH-14 binding were mapped to the mbr-1 promoter by the modENCODE consortium (Gerstein et al., 2010).
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As shown in Figure 4A, Nhtt17Q binding was mapped to a region containing the cue domain of gp78.
The binding was mapped to a 9 amino acid region in the loop of the large extracellular domain of Sjc23 (named Sjc23-LED).
Using various truncated constructs of p53, ORF-1 6A) ORF-1 6Awas mapped to a region within residues 28 to 187, which includes the C-terminal half of the p53 transcriptional activation domain and the N-terminal half of the DNA-binding domain.
The cooperative binding is mapped to the non-DNA binding region of GABPα, suggesting that cooperativity is via protein-protein interactions.
The smallest HECTD3 domain responsible for caspase-8 binding was mapped to a region between 109 and 393 that harbors the DOC domain.
The two stretches of residues, whose alanine mutations abrogated CRY1 binding, are mapped to a loop flanked by two α-helical regions in the C-terminal half of PER2.
Using synthetic α-actinin-4 peptides, HAMLET binding sites were mapped to the N-terminal actin-binding domain and the proposed β integrin-binding central rod domain between spectrin repeats 1 and 2, suggesting that HAMLET might impair these essential interactions, [5], [6], [10].
The nucleotide modifications (by DMS), the pauses corresponding to nuclease (TI and VI) cleavage sites and the toe prints corresponding to PTB binding sites were mapped to MFOLD predicted structure for clarity (Fig. 3).
All binding events were mapped to genes using the same protocol described previously [12].
TRANSFAC's 522 mammalian minimum false positive matrix profiles of binding sites were mapped to the promoter regions (see Methods).
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