Generator Rex (2010–2013)?
From Wikipedia:
Five years prior to the events of the series, an explosion occurred on Earth, causing microscopic machines called "nanites" to infiltrate the bodies of all its organic life. When activated, nanites mutate the biology of their hosts; living beings with activated nanites are known as Exponentially Variegated Organisms (E.V.O.). Rex is an amnesiac fifteen-year-old boy and permanent E.V.O. who, unlike most other E.V.O.s, lacks physical deformation but has forgotten his past. He is also able to control his active nanites, allowing him to manifest from his body various bio-mechanical abilities and powers. He also has the unique ability to deactivate nanites inside other E.V.O.s, effectively curing them of their mutations and returning them to normal. Working for Providence under Agent Six and White Knight, Rex uses his unique abilities to stop and cure rampant E.V.O.s.
"They used some kind of catch phrase with "resonance" or "resistance" in it."
Providence perhaps?
From the Generator Rex Wiki:
Providence is a global, clandestine military organization that was created in response to the Nanite Event. Providence's initial function was to contain or kill hostile EVOs. Over time, the organization discovered a teenager named Rex Salazar, a human-passing EVO capable of curing other EVOs. Providence then decided to take a more ethical approach to make curing EVOs priority.