Eighty-eight Australians were among the 202 people killed in the attacks on the Sari Club and Paddy's Bar at the popular tourist area of Kuta on October 12, 2002.
Mr Rudd said that Australia's thoughts and prayers were with those who suffered.
"This is a day which Australians won't forget," he said on the seventh anniversary of the blasts.
"It's a day when the families of those who lost their lives, and those who were injured, won't forget either.
"This has meant that so many lives in Australia, so many families, have been fundamentally changed because of that act of brutal terrorism in 2002.
"So, I confidently say that the thoughts, the reflections and the prayers of the entire nation are with those who suffered such terrible loss back in the Bali bombings of 2002."
Australians in Bali will get together on Monday to mark the anniversary of the devastating 2002 terrorist attack.
About 60 survivors and family members of victims will join Australian and Indonesian officials for a low-key memorial service at the Australian consulate.
Other commemorations are also scheduled to take place at a permanent memorial near the bombing sites and on Kuta beach.
In Sydney, NSW Premier Nathan Rees was among the around 300 people gathered at the Bali memorial at Coogee beach to mark the anniversary.
Twenty of the 88 Australians killed in the Bali blasts came from the Coogee and surrounding eastern Sydney area.
Source: The Australian