(I imagine this makes it a bit like the film "Prometheus". It's set i the same place but it has its own mythos/list of characters/dilemmas)
Here's some more info from the story in the link:
Information on the story for the "S.H.I.E.L.D." pilot is still sparse, but we're crossing our fingers for a cameo from fan-favorite Agent Phil Coulson (Clark Gregg). The character seemed to die at the hands of Loki in "The Avengers" (although some conspiracy theorists believe his demise was a ruse masterminded by Nick Fury), but could always appear if the show is presented as a prequel to the film.
The pilot order is the latest in a line of investments that Disney (which owns Marvel and ABC) has made in Whedon of late. Earlier this month, it was announced that Whedon would be returning to write and direct the "Avengers" sequel for Marvel, a move that was far from a done deal as recently as July, when the writer-director admitted he had yet to decide whether he wanted to be involved with "Avengers 2" at Comic-Con.
Regardless of the show's ultimate fate, any network offering to bring Whedon back to TV is fine by us. The fan-favorite writer has had mixed results with scripted series since the end of "Buffy the Vampire Slayer" and "Angel" in the early aughts, with cult classic "Firefly" lasting only eleven episodes on Fox before being cancelled in 2002. Whedon's next project for Fox, the less beloved but no less ambitious "Dollhouse," lasted 26 episodes before it too was cancelled. Whedon, Whedon and Tancharoen's "Dr. Horrible" will make its TV debut on October 9 at 9 p.m. ET on The CW, after premiering exclusively online back in 2008.