The president's account was "deactivated due to human error by a Twitter employee", the company said in a statement.
Twitter said they were continuing to investigate the mishap and were working to make sure it didn't happen again.
President Trump's Twitter account was briefly shut down by a rogue employee on his last day with the company.
The temporary deletion of the Trump account sparked a flood of criticism from Twitter users, though numerous president's critics also said they were happy to see the account disabled.
People have been calling on Twitter to suspend Trump's account for a long while, the reasons for which vary but include claims of terms violations and bullying.
For those few minutes, visitors to Trump's account were simply met with the message, "Sorry, that page doesn't exist!" And he has used Twitter in office like no president before him (and maybe no president who comes after him will). "We are conducting a full internal review", Twitter said in a tweet. Many Twitter users sent out screenshots of the temporarily nonexistent page.
Trump, who has almost 42 million Twitter followers, responded to the temporary loss of his account by boasting about his wide reach on the service.
Free speech social network Gab also weighed in on the incident, declaring, "A random triggered customer service employee at Twitter can ban the President of the United States".
The Trump Twitter takedown comes on the same week that lawyers for the largest social media companies in the world were on Capitol Hill talking about their efforts to combat the spread of misinformation.
Twitter's rules forbid using the service to make violent threats, either direct or indirect.
Twitter has struggled in recent months in how it enforces, and explains, its procedures for managing accounts that violate its policies created to prevent hate, harassment and other abuse of the platform. Suspensions aren't uncommon on the site.
He added: "Seriously, what if this person had tweeted about a fictional nuclear strike on North Korea?"
With any past president, a tweet like that would immediately be assumed as the result of some sort of hack. The New York Times reported earlier this year that members of his staff are desperate for him to slow down with the tweets.