The ECM doesn't care what filter you have or if you have none at all. Something has stopped working correctly or as Roadworthy said you have a loose wire or dodgy earth.
If you can't get someone to read your ECM through the OBD connector, it might be worth while removing the seat and tank and then re-seating any electrical plugs you see in a methodical manner, then put the seat and tank back on and go for a ride. The engine light will go off after three warm up cycles if you've cured the problem.
A warm up cycle is getting the engine temp up to 72°C and then letting it cool down by at least 23°C. Generally the engine will get up to 72°C after a 20 minute ride.
If the engine light doesn't go off after three cycles then definitely get in touch with your dealer. Good luck.
