(written from a Production point of view)
Andrew Steven Harris brought the DS9 IDW comic series about by including the series in the Star Trek Archives series, with the release of the Best of Star Trek: Deep Space Nine, a collection of the first DS9 comics published by Malibu Comics. 
Harris commented that he thought the DS9 comics would not link into Pocket Books' own DS9 "relaunch" novels, stating "I would speculate that they will not interface with the DS9 Relaunch novels from Pocket Books. IDW has always been quite independent in its Trek storytelling, and I would expect that it will pursue its own creative path without the obligation to proactively incorporate the prose-novel efforts. IDW will probably do what it can to avoid actively contradicting such stories, but keep in mind that both producing comics and novels remains acutely work-intensive, and it’s difficult enough already to keep in mind 168 episodes of the TV series, let alone what happens on every page of every novel that Pocket Books has ever published. Add to that the fact that Senior Editor Marco Palmieri has been laid off from Pocket without replacement and Paramount recently lost the encyclopaedic knowledge of Trek guru Paula Block, and you can start to imagine the difficulties involved".