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The first tool (MITOMI) consists of a microfluidic platform that enables quantitative measurement of binding affinities and kinetics for up to 4,000 interactions in parallel.
Kitamura, K. et al. Binding free-energy calculation is a powerful tool for drug optimization: calculation and measurement of binding free energy for 7-azaindole derivatives to glycogen synthase kinase-3β.
The single injection cycle kinetic assay allowed rapid measurement of binding rate constants for antibody-antigen interactions.
The study also includes the measurement of binding interaction of paraoxon imprinted quartz crystal microbalance (QCM) sensor, selectivity experiments and analytical performance of QCM electrode.
Recently, we developed an experimental assay and analysis pipeline that allows measurement of binding energies between a single TF and up to 106 DNA species in a single experiment (Binding Energy Topography by sequencing, or BET-seq) (Le et al., 2018).
The function of this microfluidic system with four integrated valves and two fluidic chambers has been successfully demonstrated in a bio-analytical measurement of binding of thrombin to its antibody.
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Sequence libraries that cover all k-mers enable universal, unbiased measurements of binding to both oligonucleotides and peptides.
Optical density measurements of binding in 15 brain regions on each section were evaluated by 1- and 2-way analysis of variance.
Measurements of binding constants show that HES-1 recognizes dsDNA synthetic oligonucleotides corresponding to several functional DNA targets with high affinity, but with relatively little specificity.
The signature HKKme2 motif of p53, which defines specificity, is identified through a combination of NMR resonance perturbations, mutagenesis, measurements of binding affinities and docking simulations, and analysis of the crystal structures of 53BP1 bound to p53 peptides containing other dimethyl-lysine marks, p53K370me2 (p53 dimethylated at Lys370) and p53K372me2 (p53 dimethylated at Lys372).
Recent genome-wide measurements of binding preferences of ∼200 transcription regulators in the vicinity of transcription start sites in yeast, have provided a unique insight into the cis-regulatory code of a eukaryotic genome.
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