BTS technicians are racing to repair the problems and services are expected to resume around noon.
A large number of commuters have been forced to change their mode of transportation after the system suspended service on both routes for the first time since it began operations.
The problem reportedly occurred at 3am, when the trains could not operate normally, affecting many commuters.
Mr Surapong Laohaanya, Chief Operating Officer of Bangkok Mass Transit System Pcl which operates the BTS system, said an error or defect in software caused the computer programme for the Silom and Sukhumvit routes to malfunction.
Mr Anat Abhabhirom, BTS executive said the problem would be fixed and service could resume around noon.