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The phrase "also fundamental differences in" is correct and usable in written English.
You can use it when discussing variations or distinctions between two or more subjects, particularly in academic or analytical contexts.
Example: "In addition to the similarities, there are also fundamental differences in their approaches to problem-solving."
Alternatives: "as well as significant differences in" or "along with essential differences in".
Exact(3)
There are also fundamental differences in structure, culture and ideology.
However, it's easy to forget that there are also fundamental differences in how brains and computers process and store information.
There are also fundamental differences in the biological properties of proteins compared to smaller molecular weight chemicals, e.g. pesticides) which greatly limit the potential of proteins to produce chronic toxic effects when ingested.
Similar(57)
Compared to classical relational databases, a wiki has some similarities but there are also fundamental differences.
But some experts say the friction between the two is not only about turf wars but also about fundamental differences in culture.
The existence of the draft during the Vietnam War, and the war's growing unpopularity as the years passed without victory, also created fundamental differences in the makeup of the armed forces.
There are also some fundamental differences in my college experience that I did not expect.
We also identified fundamental differences in basic sequence properties of the CNEs when compared with control sequences.
We also highlight fundamental differences in the underlying algorithms and discuss the various metrics employed to assess prediction quality, comparing their strengths and weaknesses.
These observations demonstrate that loss of 5-HT7 results in the dysregulation of cell renewal, not only in the number of cells undergoing nuclear division but also in fundamental differences in the intracellular organization within the cells.
While discrepancies across studies might be due to differences in patient characteristics such as severity of residual deficits or time since stroke, they might also reflect fundamental differences in network dynamics between rest and activity.
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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