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For the standard curve, templates with known concentrations were prepared in serial dilutions.
The absolute copy number in each sample was determined using a standard curve established by amplifying six aliquot duplicates of templates with known copy numbers (10*6 to 10*1 copies).
Tenfold serial dilutions of these RNA/DNA templates with known copy numbers (2 × 10 to 2 × 10 copies/mL) were used to evaluate the analytical sensitivity of the Qiaxcel-V assay.
The structure of a query protein (A) is used to scan a library of templates with known function (B).
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The calibration curve was generated using the threshold cycle (Ct) of 8 serial dilutions of plasmid DNA template with known copy number.
The genesig DENV RNA standard was a synthetic RNA template with known copy number.
For each run, a general set-up was used consisting of three independent dilution series of a gene-specific plasmid template with known copy number to construct a standard curve as well as triplicates of cell line cDNA templates for quantitative analysis.
For each family, there is a template sequence with known structure.
To infer interactions based on homology, we first collected template proteins with known structures that are similar to a given query protein and have at least 80% sequence identity and more than 80% of the query sequence aligned using cBlast [ 18].
The originality of the proposed method is in its multi-layered partial template matching by comparing the query RDM pattern with template RDM patterns related with known EC numbers, and weighted major voting scheme for selecting appropriate EC numbers using reaction similarity.
The new algorithm consists of three steps as follows: (i) graph alignment of a query reactant pair for computing the query RDM pattern, (ii) multi-layered partial template matching by comparing the query RDM pattern with the template RDM patterns related with known EC numbers and (iii) weighted major voting scheme for selecting appropriate EC numbers.
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