The YJB will send one of its regional managers to oversee the running of Hassockfield STC during the investigation.
Chief executive Ellie Roy said: "We will do everything we can to ensure that the circumstances of his tragic death are made known, and that lessons that need to be learned will be."
The parliamentary joint committee on human rights has stated it will hold an investigation into children's rights in prisons.
The Howard League for Penal Reform criticised new Home Office rules covering children in prison, which they said would mean children would spend many more hours locked in their cells with "diluted" provision for education.
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