While there was some initial misreporting, Commercial airlines contain special hardware and software that would prevent a situation as described in article.  With that said, everyone must constantly plan security appropriately in airlines, power plants, automobiles, or other things which could be potentially manipulated from the outside 

http://www.theregister.co.uk/2013/04/13/faa_debunks_android_hijack_claim/

QUOTE: Aviation officials have taken a skeptical view of claims that it’s possible to hijack a commercial aircraft using a smartphone, with both the US Federal Aviation Administration (FAA) and the European Aviation Safety Administration (EASA) issuing statements to the effect that it simply couldn’t happen.  On Wednesday, Spanish security researcher Hugo Teso gave a presentation at the Hack in the Box conference in Amsterdam in which he claimed he had developed an Android app that could allow him take control of an airplane by feeding misinformation into its in-flight communications systems.

“The FAA is aware that a German information technology consultant has alleged he has detected a security issue with the Honeywell NZ-2000 Flight Management System (FMS) using only a desktop computer,” the agency wrote, making something of a muddle of the facts. The statement went on to explain that although Teso may have been able to exploit aviation software running on a simulator, as he described in his presentation, the same approach wouldn’t work on software running on certified flight hardware.