She also alleged that President Trump is encouraging right-wing extremist violence. White House press secretary Sarah Sanders denied earlier Sunday the President was trying to incite violence.
"Since the President's tweet Friday evening, I have experienced an increase in direct threats on my life many directly referencing or replying to the President's video. I thank the Capitol Police, the FBI, the House Sergeant at Arms, and the Speaker of the House for their attention to these threats," Omar said in a statement released Sunday evening.
CNN has reached out to the White House for comment.
In the Friday tweet, Trump wrote, "We will never forget!" and included video of a speech Omar gave last month in which she said, "For far too long we have lived with the discomfort of being a second-class citizen and, frankly, I'm tired of it, and every single Muslim in this country should be tired of it. CAIR was founded after 9/11 because they recognized that some people did something and that all of us were starting to lose access to civil liberties."
Omar was speaking last month to a California chapter of CAIR the Council on American-Islamic Relations. It was actually founded in 1994.
Trump included in the tweet an edited video of the 9/11 attacks.
Omar in her statement said Trump was encouraging violence which Sarah Sanders denied earlier Sunday in an appearance on ABC's "This Week."
"Certainly the President is wishing no ill will and certainly not violence towards anyone, but the President is absolutely and should be calling out the congresswoman for her not only one time but history of anti-Semitic comments," Sanders said.
Omar noted Trump would be visiting her home state on Monday for a rally.
"Violent crimes and other acts of hate by right-wing extremists and white nationalists are on the rise in this country and around the world. We can no longer ignore that they are being encouraged by the occupant of the highest office in the land. Counties that hosted a 2016 Trump rally saw a 226 percent increase in hate crimes in the months following the rally. And assaults increase when cities host Trump rallies. This is particularly concerning given the president's visit to my home state of Minnesota on Monday," Omar said in her Sunday statement.
"Violent rhetoric and all forms of hate speech have no place in our society, much less from our country's Commander in Chief. We are all Americans. This is endangering lives. It has to stop," said Omar.
This story has been updated.