Here, Press Association Sport's takes a look at some of the key battles ahead.
Per Mertesacker vs Mario Mandzukic
Mertesacker is no stranger to the attacking prowess of Bayern, having joined Arsenal from the Bundesliga where he had spells with Hannover and Werder Bremen. However, the 6ft 6ins German centre-half will need an improved display from the first leg if he is to help the Gunners avoid conceding any more goals via lapses in concentration. Croatia forward Mandzukic will be the main threat after netting seven times in Bayern's last nine games - including what looks a decisive third away goal in north London.
Mikel Arteta vs Luis Gustavo
If Arsenal are to get themselves back into the tie, then an early supply line between midfield and attack will be crucial. With England international Jack Wilshere sidelined by an ankle problem, Spaniard Arteta is likely to be the main creative force for the Gunners, aiming to unleash the pace of Theo Walcott behind the German backline. With Bastian Schweinsteiger suspended, Brazilian Gustavo will be the man charged with nullifying any options for quick transition from the English side.
Olivier Giroud vs Daniel van Buyten
France international Giroud missed a great chance to make it 2-2 in the first leg and if another comes along at the Allianz Arena, then he cannot afford to be so lax in front of goal. Giroud is often likened to a typical old-fashioned English centre-forward, and will again be closely guarded by Belgian defender Van Buyten, who had a short loan spell at Manchester City in 2004.