An official press note said today that Justice Ganguly submitted a letter yesterday to Governor M K Narayanan conveying his resignation from the post of WBHRC chairman.
"The governor has accorded his acceptance to the resignation with immediate effect," it added.
The former Supreme Court judge had been under pressure to quit as WBHRC chief in the wake of allegations of sexual misconduct levelled by a law intern.
"I would like to affirmatively say that allegations which are appearing against me in the media both electronic and print are unfounded and baseless and I deny the same," he said.
Justice Ganguly's decision to quit came close on the heels of the Union Cabinet on Thursday last approving a proposal for sending a Presidential reference to the Supreme Court on the issue, which was seen as a step towards his removal as WBHRC chairman.
"The purported recommendation to the Hon'ble President for my removal, are based on grounds, which, in my opinion, are untenable and misconceived," Ganguly said in the letter, which he read out to PTI over phone.
Ever since the scandal broke in November, the former apex court judge had refused to step down even after a three-judge committee of the Supreme Court had indicted him.
West Bengal Chief Minister Mamata Banerjee had written twice to President Pranab Mukherjee seeking urgent action against the retired judge.
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