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The phrase "affect the interaction of" is correct and usable in written English.
You can use it when discussing how one element influences or changes the way two or more entities engage with each other.
Example: "The new policy will affect the interaction of team members during collaborative projects."
Alternatives: "influence the engagement of" or "impact the relationship between".
Exact(60)
Temperature was observed to positively affect the interaction of the protein and adsorbent.
As reported previously, increases in ROS production are likely to indirectly affect the interaction of silver with its targets [21].
The level of English proficiency was observed by Hanjani and Li (2014) to affect the interaction of learners, especially in asymmetrical pairs of learners in peer review.
But by considering seasonal norms, discretionary time and the cultural expectations of people in given conditions it may be possible to appreciably understand how it might affect the interaction of victims and offenders in time and space.
The presence of a higher number of -NH3+ charged groups may affect the interaction of -OH groups with metal cations (Zn2+) during the nucleation, growth and stabilisation of QDs.
This could be due to the significantly different average size [38, 39] of the pigment compared to TiO2 pigments or to a difference in dispersion quality which in turn affect the interaction of the paint film with light.
Furthermore, the wide distribution of the 3-nm dark spot in the nanowire leads to the inhomogeneous distribution of refractive index in the nanowire, which may affect the interaction of the incident light with the nanowire and enhance the scattering efficiency.
Robichaux and Cooper (1998) concluded that "cultural differences in terms of language affect the interaction of personal abilities and the supporting technologies, which results in a differentiation of behavioral skills and leads to differences in the ease with which participation in communication can occur" (p. 297).
When such data is used for modeling the CO2 transport and storage in coal, the results can be misleading, if the model does not take into account the differences in texture and porosity between coal powder and lumps (Romanov and Soong 2008) that may affect the interaction of fluids and coal (Romanov and Soong 2009).
The prediction that KGlu would not affect the interaction of F-σ70 with Tb-core was also confirmed.
As mentioned above, modification of Cys, Glu, Arg and His did not affect the interaction of tau with DNA.
More suggestions(18)
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com