Conte said he was saddened to inform Sabean of his decision, but noted the Giants has "the best medical department in baseball, and I feel confident it will stay that way."
"Stan was instrumental in helping the Giants medical team become one of the best in professional sports," said Sabean. "His dedication and his medical expertise over the years were a strong ingredient in our success. We wish him the best in his future endeavors.
"Luckily for the Giants, we already have a head trainer on staff in Dave Groeschner. The medical department will be in good hands under Dave's direction."
Conte, San Francisco's head trainer for the past seven years, lectures locally and nationally on the treatment and rehabilitation of sports injuries, and authored "Major League Disability Days: An Eleven Year Study," which was published in the American Journal of Sports Medicine.
No relation to Victor Conte, former owner of BALCO laboratory in Burlingame, Calif., Stan played football at San Jose State and has multiple business interests involving sports medicine.
Conte, who is one of the few athletic trainers to hold an additional credential in physical therapy, is currently finishing his doctorate of physical therapy at Boston University and is excited about exploring opportunities. Conte said he wouldn't be adverse to joining another team as head trainer.
He and his wife Nancy will continue to reside in the Bay Area.
"This is my home no matter what," said Conte, "but this closes a chapter in my professional life."
Groeschner has been Conte's top assistant the last two years, and also had experience as the Giants' strength and conditioning coordinator.
He has a bachelor's degree in physical education from the University of South Carolina and is a member of the Professional Baseball Athletic Trainers Society and the National Athletic Trainers Association.
The Giants have outrighted left-handed pitcher Jesus Reina and infielder Tomas De La Rosa to Triple-A Fresno.
Reina, a 22-year-old southpaw, went 5-4 with a 5.77 ERA in 18 games (17 starts) for Class A San Jose in 2006.
The 28-year-old De La Rosa batted .293 in 79 games with Fresno, while going 5-for-16 (.313) in 16 contests with San Francisco after having his contract purchased on Aug. 19.