The former Manchester United youth star has been influential for the Ligue 1 club.
However, L'Equipe state that Gomes has a hamstring injury that will rule him out for several weeks.
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He is now set to miss both legs of their Conference League quarter final against Aston Villa.
Gomes has started 23 of Lille's 25 matches in Ligue 1 so far this term, along with several European games.
Lille, who topped their group, will face either Fenerbahce or Olympiacos in the semi finals if they can beat Villa.