"So far we have 27 dead and 96 injured," NEMA's co-ordinator in the Adamawa state capital, Sa'ad Bello, told AFP.
The explosion happened at about 2:00 pm (1300 GMT) at the Jambutu Juma'at mosque in the Jimeta area of the city, shortly after the imam had finished his inaugural sermon.
The blast came after at least 28 people were killed in a suicide bombing at a mosque in Maiduguri, the capital of Borno state, shortly after 5:00 am on Friday.
One volunteer at the Jambutu Juma'at mosque, who helped in the rescue effort but asked not to be identified, said: "This mosque was nearly built and this was the first prayers in it.
"While worshippers had risen for the prayers to start after the sermon by the imam, there was a huge blast in the premises," he said.
"There was confusion and dozens of worshippers lay on the ground in blood."
Another rescuer, who also requested anonymity, said: "The explosion happened in the midst of a large congregation of worshippers."
"At the (Adamawa) State Specialist Hospital we have 18 dead bodies and 50 injured. At the Federal Medical Centre, we have nine dead and 46 injured," he said.
"Most of the injured are now in a stable condition and have been moved to the wards. Only a few remain in the emergency section."
He added: "The injuries include fractures, burns and fissures (cuts)."
Yola has been seen as a relatively safe haven from the Boko Haram insurgency, which has ravaged the northeast for the last six years.
