He graduated from Tehran Medical School in 1986. He received his Master of Science and Doctor of Philosophy degrees in medical Genetics from Glasgow university, United Kingdom. He is the first Iranian doctor who obtained Master of Science , Doctor of Medicine and Doctor of Philosophy in medical genetics.
He has founded the Iranian Fetal Medicine Foundation (FMF Iran), Hope Generation Foundation of Iran, Center for prevention of congenital disorders and developmental delays and the "Gene Clinic". Doctor Ghaffari has pioneered the Down syndrome and newborn screening programs using Tandem mass spectrometry (Mississippi/Mississippi) in Iran. "Iranian Genetic Core Facility" designed and established by Doctor Ghaffari was opened officially in February 2010 in Imam hospital, Tehran, Iran.
In November 2014, he established the first "Next Generation Sequencing" center in Iran at the "Hope Generation Foundation" which was officially opened by the Iranian health minister in January 2015.
