For differentiation-associated proteins, lysates are often the most direct choice, though suitability depends on where the protein is enriched in your system. A convincing design includes a time-course (multiple days), consistent normalization by total protein, and at least one orthogonal marker (e.g., CD14 decrease, CD68 increase, or functional assays). Using this quantitative colorimetric sandwich ELISA, you can quantify MMA alongside other markers to support a coherent differentiation story.
You can compare, but you should expect matrix and baseline expression differences. We recommend keeping sample preparation aligned, normalizing by total protein, and confirming dilution parallelism for each source. A strong approach is to analyze fold-change from each source's baseline rather than comparing raw values directly. Including a shared reference sample can help link plates and reduce confounding from inter-source variability.
First check technical factors: pipetting accuracy, plate washing consistency, and whether samples were well mixed and clarified. Then evaluate biological sources of variability: uneven differentiation efficiency, donor variability, or inconsistent cell density. Running triplicates for key samples and including an internal control lysate across plates can separate technical noise from biology. If variability persists, consider tightening cell culture timing and using standardized differentiation protocols to reduce batch effects.
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