Soucek was shown a straight red card by referee Mike Dean in second half stoppage time after he appeared to accidentally catch Aleksandar Mitrovic in the face with his elbow as the pair jostled for a free kick.
Dean was invited to consult his pitch side monitor to review the incident and promptly sent the 25-year-old Czech Republic international off.
Hammers boss David Moyes was visibly livid with the decision and the club have decided to make an appeal.
"West Ham United have submitted notice to The Football Association to appeal the red card Tomas Soucek was shown in Saturday's Premier League fixture against Fulham," read a club statement.
"The Czech midfielder was sent-off in added time at the end of the second half after coming into contact with Fulham forward Aleksandar Mitrovic.
"Referee Mike Dean was asked to look at the incident on the pitchside monitor by VAR official Lee Mason and decreed that the No 28's actions constituted violent conduct.
"The appeal against Soucek's red card will now be reviewed by an independent regulatory commission at the Football Association."
Soucek, who has been one of West Ham’s most important players with eight goals in the top flight, will miss games against Manchester United, Sheffield United and Tottenham Hotspur if the appeal is unsuccessful.
