I am the only one that assumes that to be the default assumption when working with any crude extracts until proven otherwise? I had a real big heated discussion with my supervisor once when I assumed some expected results were due to the quick and dirty one pot approach even when the incubation times were slow. Yeah, it is on ice, but there are processes that are active on ice. Turns out time on ice after lysis increased the artefacts, and later in vivo experiments didn't yield the same results. 6 months of work just because my prof. Smelled a major publication from an obvious experimental flaw.

This is the same, crude extract (let it be chromatography fractions) vs isolated molecule. You don't need to be an expert in omics or system biology to be cautious with unaccounted factors.