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My answer is (D). It took me 49 seconds.

(A) "known as neuroplasticity" does not have a sensible noun or pronoun it can modify. Try "inputs" or "the brain", and neither works.
Also, "the brain being a malleable organ" rather than a straightforward clause makes this option less appealing. (That is to say, I cannot eliminate it entirely on "the brain being a malleable organ", but I certainly need a compelling reason to choose such construct.)

(B) The antecedent for "which" in "which is known as ..." is "new sensory inputs", but it does not make sense.

(C) No main clause.

(D) The use of a summation noun "a phenomenon" provides a sensible antecedent / noun for "known as neuroplasticity".

(E) "known as neuroplasticity" does not have a sensible noun or pronoun it can modify.
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Contrary to what is generally believed, the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity.

A) the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity

filled with errors -Wrong use of being,

B) the brain is a malleable organ and is capable of restructuring itself—within limits—and adapting to new sensory inputs, which is known as neuroplasticity

Which is referring to sensory inputs

C) since the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity

We need subject of the independent clause to connect the modifier-"since" is wrongly placed

D) the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity

All good meaning is clear and sentence is simple and gametically correct

E) the brain is capable of restructuring itself and adapting to new sensory inputs within limits since it is a malleable organ, known as neuroplasticity

Known as modifying "malleable organ" to give an impression that malleable organ is know as neuroplasticity
Also meaning is changed

D is the right answer in my opinion
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Contrary to what is generally believed, the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity.

A) the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity

filled with errors -Wrong use of being,

B) the brain is a malleable organ and is capable of restructuring itself—within limits—and adapting to new sensory inputs, which is known as neuroplasticity

Which is referring to sensory inputs

C) since the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity

We need subject of the independent clause to connect the modifier-"since" is wrongly placed

D) the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity

All good meaning is clear and sentence is simple and gametically correct

E) the brain is capable of restructuring itself and adapting to new sensory inputs within limits since it is a malleable organ, known as neuroplasticity

Known as modifying "malleable organ" to give an impression that malleable organ is know as neuroplasticity
Also meaning is changed

D is the right answer in my opinion
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Contrary to what is generally believed, the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity.

A) the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity
'known' is the verb+ed form of the verb 'know'
'known as neuroplasticity' modifies the subject of the previous clause, i. e. brain
So, the meaning becomes, brain, known as neuroplasticity, ......
Thus, 'known as neuroplasticity' incorrectly modifies the brain.

B) the brain is a malleable organ and is capable of restructuring itself—within limits—and adapting to new sensory inputs, which is known as neuroplasticity
Here, 'which' modifies the previous clause. This usage of 'which' is incorrect.

C) since the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity
This sentence is a fragment.

D) the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity
Correct

E) the brain is capable of restructuring itself and adapting to new sensory inputs within limits since it is a malleable organ, known as neuroplasticity
Same as A

Choice D is the answer.
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IMO D

Contrary to what is generally believed, the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity.

A) the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity

B) the brain is a malleable organ and is capable of restructuring itself—within limits—and adapting to new sensory inputs, which is known as neuroplasticity

C) since the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity

D) the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity

E) the brain is capable of restructuring itself and adapting to new sensory inputs within limits since it is a malleable organ, known as neuroplasticity
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Contrary to what is generally believed, the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity.

Pre-thinking: Sentence Structure can be better. 'within limits' modifies the capability of the brain.

A) the brain being a malleable organ makes it capable —within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity
'is a malleable organ' is a better way of describing the brain than 'being a malleable organ'

B) the brain is a malleable organ and is capable of restructuring itself—within limits—and adapting to new sensory inputs, which is known as neuroplasticity
'within itself' should modify the word capable and not 'restructuring itself'

C) since the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity
As the sentence begins with 'Contrary to what is generally believed', 'since' is not the right word to follow.

D) the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity

E) the brain is capable of restructuring itself and adapting to new sensory inputs within limits since it is a malleable organ, known as neuroplasticity
The arrangement of sentence changes the meaning.

IMO answer should be option D.
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Contrary to what is generally believed, the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity.

A) the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity -> "known as neuroplasticity" modifies brain, which doesn't make sense. Incorrect.

B) the brain is a malleable organ and is capable of restructuring itself—within limits—and adapting to new sensory inputs, which is known as neuroplasticity -> which modifies new sensory inputs. It is incorrect.

C) since the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity -> "Since" is incorrect to use.

D) the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity -> No errors.

E) the brain is capable of restructuring itself and adapting to new sensory inputs within limits since it is a malleable organ, known as neuroplasticity -> "known as neuroplasticity" modifies the brain. It is incorrect.

So, I think D. :)
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IMO D - 52 seconds
Contrary to what is generally believed, the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity.
A) the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity – no clear referent for it, using being makes the option awkward and less clear, also the clause is itself not known as neuroplasticity. A is out
B) the brain is a malleable organ and is capable of restructuring itself—within limits—and adapting to new sensory inputs, which is known as neuroplasticity - which immediately modifies the preceding noun – B is out.
C) since the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity – usage of since is wrong here – C is out
D) the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity. Looks good, the brain, a phenomenon perfectly modifies the previous clause. Keep D
E) the brain is capable of restructuring itself and adapting to new sensory inputs within limits since it is a malleable organ, known as neuroplasticity – the brain is… known as neuroplasticity? E is out

In case I'm wrong, please correct me
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Contrary to what is generally believed, the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity.

A) the brain being a malleable organ makes it capable—within limits—of restructuring itself and adapting to new sensory inputs, known as neuroplasticity
use of being is not required. Also modifier is not to modify inputs.

B) the brain is a malleable organ and is capable of restructuring itself—within limits—and adapting to new sensory inputs, which is known as neuroplasticity
Parallelism error. Also modifier is not to modify inputs.

C) since the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity
contrary and since both shall not be together

D) the brain is a malleable organ, capable—within limits—of restructuring itself and adapting to new sensory inputs, a phenomenon known as neuroplasticity
No remarks

E) the brain is capable of restructuring itself and adapting to new sensory inputs within limits since it is a malleable organ, known as neuroplasticity
Modifier error

IMO D
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The official explanation is here.
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