The 27-year-old did not meet up with his international team-mates ahead of their friendly clash with Niger after hurting his back during Sunday's 1-0 Premier League defeat by West Ham.
Manager Alan Pardew revealed the club informed Senegal and sent off details of the player's medical condition, but have since been told they were not received. As a result, the Africans are understood to be threatening to invoke FIFA's five-day rule, which would mean Cisse could not play for the Magpies this weekend.
Pardew said: "We have a bit of an issue going on at the moment with the federation.
"We feel we have covered all the bases to give them the information, but they seem not to have received it, so we are in discussions with Senegal and the FA about his availability for Saturday."