Caltrain is great for getting back and forth from San Jose to San Francisco -- I've done it twice this month already, accompanied by two individuals mentioned in this thread -- but I want to ask if you know that hardly any trains go to the Caltrain station that's a few blocks away from the hotel. The last SF train that stops at that station leaves at 7:36 am, whereas the main San Jose station (not exactly walking distance from the hotel) has them going back and forth all the time.

See http://caltrain.org/timetable_effect...day-northbound for the schedule.