The Department of Health has said there were "serious concerns" over patient safety last week and the decision to suspend surgery at the Leeds General Infirmary was right.
A spokesman said: "The key consideration must always be patient safety. We support NHS England and the Trust in their decision to suspend surgery last week on the basis that there were serious concerns that needed to be investigated.
"If the trust and the regulators are content that these concerns can now be explained or addressed then we would support a joint decision to resume surgery."
NHS England and the Care Quality Commission have confirmed that Children’s Heart Surgery Services at Leeds General Infirmary are safe.
Children's heart surgery is set to resume at Leeds General Infirmary after days of uncertainty over its future.
The Children's Heart Federation says the interests of management at the LGI have been "put ahead of critically ill children".