A bench headed by Chief Justice of India Ranjan Gogoi issued notice and stayed the proceedings of the inquiry commission.
The AIADMK-led state government had set up the inquiry commission to look into the circumstances leading to the death of Jayalalithaa on December 5, 2016, at Apollo Hospitals.
Shobhana said she was travelling abroad and came back to India to cast her vote at the same polling booth where she had exercised her electoral right for the Telangana Assembly elections in December.
It disagreed with the hospital's contention that a retired judge of the high court (Arumughaswamy) cannot be the competent person to deal with the complex and intricate medical treatment.
The Commission is going into the circumstances leading to the admission of former Chief Minister J Jayalalithaa in Apollo Hospitals and the treatment provided to her.
Even the confidential letter, written by the Commission to the hospital CMD, was released to the media, before it reached him.
It is only a fact-finding body and bound to go by the four corners of the statute.
The counter was filed in response to the writ petitions from the hospital levelling various allegations against it.
Doctors at Apollo Hospitals successfully performed minimally invasive heart procedure on elderly patients recently.
Jayalalithaa died on December 5, 2016 and the Commission of Inquiry was constituted the next year by the AIADMK government following allegations and suspicions surrounding her death.
According to a release, Rifat Iqbal from Bangladesh was brought to Apollo Hospitals with an unbearable swelling in his left leg, making him immobile.
The petition is said to have alleged certain anomalies in the medical treatment provided to Jayalalithaa. It has especially highlighted the failure to perform angiography.
The middle-aged woman had also developed a life-threatening blood clot in the vein of her leg which posed an immediate risk of travelling upwards and affecting other vital organs.
The one page summary of the bill submitted recently to Justice Arumugasamy panel probing the circumstances leading to her death, got leaked and went viral on social media.