Label-Free Quantitative Proteomics for Protein Interactions

Digest interaction pulldowns, run LC-MS/MS, normalize intensities, and call specific interactors versus controls using replicate statistics.

Key Takeaways

• No labeling step speeds design.
• Requires careful normalization and controls.
• Works with GFP-Trap, antibody IP, or AP-MS.
• Pairs with network annotation.

Related Services

Label-Free Quantitative Proteomics Service

Label-Free Analysis Service

Protein Interaction Analysis Service

FAQ

1. How many replicates?

Typically ≥3 biological replicates for interaction LFQ.

2. How control bait specificity?

Use empty vector or unrelated GFP fusion controls.

Conclusion

Label-free quant makes interaction proteomics accessible for many bait proteins.