The bomb exploded in the second car just a few minutes after the metro left Helmeyet el-Zaytoun station, Egyptian Ministry of Health said in a statement.
Most of the victims were injured in the stampede that broke out after the explosion, the officials said.
Ambulances have been called in and policemen are carrying out the investigation.
Egypt has been hit by a series of attacks, many of them claimed by Sinai-based jihadist group Ansar Beit al-Maqdis, which on Monday pledged its allegiance to the Islamic State group in Iraq and Syria.
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