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The phrase "a fundamental problem in" is correct and usable in written English.
It can be used when discussing a core issue or challenge within a specific context or field.
Example: "The researchers identified a fundamental problem in the current methodology that could affect the results of the study."
Alternatives: "a core issue in" or "a key challenge in".
Exact(59)
"I think that this is unfortunately a fundamental problem in cancer," Dr. Bissell said.
Russell had identified a fundamental problem in set theory with his paradox.
He said Britain had a fundamental problem in supporting innovative businesses.
Material recognition is a fundamental problem in computer vision.
Anaphora resolution is a fundamental problem in natural language processing.
Image denoising is a fundamental problem in image processing.
Shape representation is a fundamental problem in computer vision.
Experimental design is a fundamental problem in science and engineering.
A fundamental problem in signal processing is to estimate signal from noisy observations.
In particular, we have studied a fundamental problem in population systems, namely stochastically ultimate boundedness.
A fundamental problem in nonlinear analysis is to study solutions of (3.1) for close to.
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