The Adventures of John Blake: Mystery of the Ghost Ship:

The Adventures of John Blake: Mystery of the Ghost Ship (The Adventures of John Blake #1) by Philip Pullman, illustrated by: Fred Fordham
Fiction: Sci-fi, mystery, graphic novel, 160 pages

A mysterious ghost ship appears out of a sudden fog.  If you look into the eyes of the boy on board you die.  Or at least that is the story; the ship isn't full of ghosts, its full of people from all different times who are very much alive, but trapped traveling back and forth in time.  And there is someone from the present day after them.  As well as others searching for answers and deeply connected to the ship's sailors.  John Blake, the boy who is at the center of this all, saves the life of a girl from modern times, and has to risk everything to put her back in her time.