biostudies-literatureChavez JDNCRR NIH HHSNational Heart, Lung, and Blood InstituteNHLBI NIH HHSNational Institute of General Medical SciencesNIGMS NIH HHS14094-14102https://www.ebi.ac.uk/biostudies/studies/S-EPMC7995634biostudies-literatureUnknown92(20)Chemical cross-linking with mass spectrometry (XL-MS) has emerged as a useful tool for the large-scale study of protein structures and interactions from complex biological samples including intact cells and tissues. Quantitative XL-MS (qXL-MS) provides unique information on protein conformational and interaction changes resulting from perturbations such as drug treatment and disease state. Previous qXL-MS studies relied on the incorporation of stable isotopes into the cross-linker (primarily deuterium) or metabolic labeling with SILAC. Here, we introduce isobaric quantitative protein interaction reporter (iqPIR) technology which utilizes stable isotopes selectively incorporated into the cross-linker design, allowing for isobaric cross-linked peptide pairs originating from different samplesAnalytical chemistryIsobaric Quantitative Protein Interaction Reporter Technology for Comparative Interactome Studies.PMC79956341R35GM136255S10 RR025107R35 GM136255R01 GM086688R01 GM0971125R01GM086688R01 HL1447785R01HL144778Keller ABruce JEChavez JDMohr JPfalseIsobaric Quantitative Protein Interaction Reporter Technology for Comparative Interactome Studies.Chemical cross-linking with mass spectrometry (XL-MS) has emerged as a useful tool for the large-scale study of protein structures and interactions from complex biological samples including intact cells and tissues. Quantitative XL-MS (qXL-MS) provides unique information on protein conformational and interaction changes resulting from perturbations such as drug treatment and disease state. Previous qXL-MS studies relied on the incorporation of stable isotopes into the cross-linker (primarily deuterium) or metabolic labeling with SILAC. Here, we introduce isobaric quantitative protein interaction reporter (iqPIR) technology which utilizes stable isotopes selectively incorporated into the cross-linker design, allowing for isobaric cross-linked peptide pairs originating from different samples2020-01-01T00:00:00Z2020 Oct2026-04-29T10:08:21.313Z2025-02-19T03:53:35.36ZS-EPMC79956343296963910.1021/acs.analchem.0c03128