Systems and methods for hydrotreating a liquid fraction of a shale oil stream using hydrogen gas that is concentrated from a gaseous fraction of the shale oil stream. The systems and methods include providing a portion of the gaseous fraction to a sorptive separation assembly and separating a concentrated hydrogen stream from the portion of the gaseous fraction within the sorptive separation assembly. The system and methods further include providing the concentrated hydrogen stream and the liquid fraction to a hydrotreater and reacting the concentrated hydrogen stream with the liquid fraction within the hydrotreater to produce the hydrotreated liquid stream. The systems and methods may include generating the shale oil stream within a subterranean formation using an in situ process, such as an in situ shale oil conversion process and/or providing a supplemental hydrogen stream to the hydrotreater.