All upgrades
Pause game play, then hold L2 and press Square, Circle, Left(2), Circle, Square while on the Mothership. All upgrades for the currently unlocked weapons will be available for purchase from Pox's lab.
Better DNA value
Every chance you get, do not kill the human before you extract their brain stem. Extract their brain stem first as it will make the DNA worth more (25 instead of 10).The easiest humans to do this to are the scientists in the level with glowing cows. For some reason, if the person that is important to you dies (the person you need to abduct), extract their brain stem before you return to the Mothership -- the DNA is usually worth more.
Brains
On the mother ship hold L2 and press R1, R1, R2, R2, Left, Right, Left, Right, R2, R1. This gives you extra DNA.
Codes
Hold L2, enter cheat, then release L2.
Invinciblity
Square, circle, left of d-pad, left on d-pad, circle, square
Infinite Ammo
left on d-pad, circle, R2, right on d-pad, R1, square
Infinite Mind
R1, R2, circle, right on d-pad, R2, circle
Aware Like A Fox
Right, Square, R2, R1, Right, R2
Nobody Loves You
Right, R2, R1, Square, Right
Mmmm Brains! (Must be entered on Mothership)
R1, R1, R2, R2, Left, Right, Left, Right, R2
More Upgrades (Must be entered on Mothership)
Square, Circle, Left, Left, Circle, Square