Local media earlier reported, citing medical sources, that at least 36 people were killed and over 120 were injured.
Footage broadcast on Egyptian state broadcaster Nile TV shows one of the trains partly keeled over in the crash, with emergency services transferring the injured to ambulances.
By nightfall, cranes aided by floodlights began to remove the wreckage off the tracks to allow rail traffic to resume.
Two passenger trains collided head-on in Alexandria, Egypt, on Friday - killing dozens of people and injuring scores more, government officials said.
One eyewitness said the two trains mounted into the air "forming a pyramid" after they slammed into each other at a suburban station on the edge of the Mediterranean port city. Rescue teams, meanwhile, continued to look for more bodies and injured passengers inside the carriages.
The statement did not say what caused the incident, saying only that the authority's experts would be investigating.
Assistant health minister Sharif Wadi told state television that most of the injured had been taken to hospital.
People gather at the site of a train collision in the area of Khorshid, in Egypt's Mediterranean city of Alexandria.
In November 2012, a speeding train crashed into a bus carrying Egyptian children to their kindergarten in the country's south, killing more than 50 - mostly children between the ages of four and six.
The deadliest accident on Egypt's railways dates back to 2002 when 373 people died as a fire ripped through a crowded train south of the capital.