Kasper Elbjoern says the company transporting the cargo "has unfortunately confirmed that the freight train that was transporting our freight has been involved in the accident".
The accident occurred on the Great Belt Bridge at around 07.35 when a passenger train, travelling from Funen over to Zealand, came into contact with parts of a freight train - most probably after coming loose from its roof.
"Terrible train accident on the Great Belt Bridge in Denmark as a result of the storm Alfrida".
134 people were reported to be aboard the train, including three crew.
Heidi Langberg Zumbusch, who had just boarded the train and taken her seat when the accident happened, said there was a "loud crash and the windows started smashing onto our heads".
Police would not immediately confirm the number of fatalities, only saying several people were killed.
Police said it was too early to say what caused the accident but the train was damaged by goods on the tracks.
The bridge is closed to both cars and trains towards the island of Funen, but auto traffic toward Zealand has now reopened.
This could have prompted the driver of the passenger train to brake suddenly.
More details are expected at a news conference later today.
Wednesday's accident was Denmark's deadliest train incident since 1988 when eight people were killed and 72 injured when a train derailed at high speed in Soro, on Zealand.
The Great Belt Bridge bridge is part of bridges and tunnel link between the Danish islands.
Flemming Jensen, the CEO of state-owned Danish Railways, said police and the Danish Accident Investigation Board are investigating the damages.
"Ordinary Danes on their way to work or heading home from the Christmas holidays have had their lives smashed", Prime Minister Lars Løkke Rasmussen said, adding that the crash had "shaken us all".