In its lead story, the daily said that the intelligence community was keeping its top secret information away from Trump, fearing that it might be leaked.
"The officials' decision to keep information from Mr Trump underscores the deep mistrust that has developed between the intelligence community and the President over his team's contacts with the Russian Government, as well as the enmity he has shown towards US spy agencies," the report said.
In a statement, CIA Director Mike Pompeo said the story was "dead wrong" and put it in the domain of gossip.
"Today's Wall Street Journal story is dead wrong and impugns the integrity of thousands of professional intelligence officers by peddling gossip without citing a single example to support its claims," Pompeo said.
"The CIA does not, has not, and will never hide intelligence from the President, period. We are not aware of any instance when that has occurred," he said.
"Any suggestion that the US Intelligence Community is withholdinginformation and not providingthe best possible intelligence to the President and his national security team is not true," it said.
"I'll tell you something, I'll be honest, because I sort of enjoy this back and forth that I guess I have all my life but I've never seen more dishonest media than frankly, the political media. I thought the financial media was much better, much more honest," Trump said.
"But I will say that, I never get phone calls from the media. How did they write a story like that in The Wall Street Journal without asking me or how did they write a story in The New York Times, put it on front page?" he asked.
Those sources and methods could include, for instance, the means that an agency uses to spy on a foreign government, the daily said.
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