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Immobilization is a key step involved in probing molecular interactions using single-molecule force spectroscopy methods, including atomic force microscopy (AFM).
To track down the missing molecular pieces of the puzzle, Shanklin's colleagues Zhiyang Zhai and Jantana Keereetaweep used a clever technique called microscale thermophoresis, which measures the strength of molecular interactions using heat and fluorescent dyes.
Our method intertwines stringency level settings, biological data and a knowledge database to highlight molecular interactions using networks and pathways.
We modeled the molecular interactions using mass action kinetic processes within an ordinary differential equation (ODE) framework.
The network of genes, mRNA, proteins and metabolites was created using CellDesigner version 4.0 (http://celldesigner.org/), a software that enables users to describe molecular interactions using a well-defined and consistent graphical notation [28].
ATPase activity-induced ATP lysis subsequently caused intermediate molecular interactions using the energy of ATP lysis [ 60].
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Curated data included: PubMed identification number, molecular interaction (using CTD curation action codes described below), interacting chemical, interacting gene, and the species in which the interaction occurred.
The second approach was to average the molecular interaction used in the model with respect to the molecular surface.
For example, Sonnleitner et al. observed that the voltage-gated ion channel does not directly open or close under the conditions of single-molecular interaction using this approach [ 69].
As simple examples, in our recent reports13,14, we have deciphered the signaling path by measuring tri-molecular binding interactions using time-lapse FRET microscopy.
Recent advances in systems biology enable illustration of a cell-wide map of complex molecular interactions by using the literature-based knowledgebase of molecular pathways.
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