The Times, in its official public relations account, called Trump's accusation "dangerous" and said it had told officials about the story before it was published and no security issues were raised.
The newspaper, basing its reports on three months of interviews with current and former government officials, said this campaign was conducted under new cyber authorities granted by Trump and Congress. But it also reported that two administration officials believed the president had not been briefed in detail, fearing he might countermand the action against Russia or reveal sensitive information to foreign officials.
In a pair of tweets sent Saturday night, Trump asserted the story wasn't true and denounced reporters as "cowards."
"Do you believe that the Failing New York Times just did a story stating that the United States is substantially increasing Cyber Attacks on Russia. This is a virtual act of Treason by a once great paper so desperate for a story, any story, even if bad for our Country," he wrote.
In a second tweet, Trump added about the story: "ALSO, NOT TRUE! Anything goes with our Corrupt News Media today. They will do, or say, whatever it takes, with not even the slightest thought of consequence! These are true cowards and without doubt, THE ENEMY OF THE PEOPLE!"
The New York Times' response also noted that the paper described the article to government officials before publication. "As our story notes, President Trump's own national security officials said there were no concerns."
The paper said there was no evidence the US had actually activated the cyber tools.