{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,4]],"date-time":"2026-09-04T15:23:03Z","timestamp":1788535383338,"version":"build-2803163510"},"reference-count":53,"publisher":"American Chemical Society (ACS)","issue":"9","license":[{"start":{"date-parts":[[2026,8,11]],"date-time":"2026-08-11T00:00:00Z","timestamp":1786406400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Oncode Institute, Dutch Cancer Society (KWF)"},{"name":"Oncode Accelerator, Dutch National Growth Fund","award":["NGFOP2201"],"award-info":[{"award-number":["NGFOP2201"]}]},{"DOI":"10.13039\/501100006244","name":"KIKA","doi-asserted-by":"crossref","award":["543"],"award-info":[{"award-number":["543"]}],"id":[{"id":"10.13039\/501100006244","id-type":"DOI","asserted-by":"crossref"}]},{"name":"KWF","award":["14806"],"award-info":[{"award-number":["14806"]}]},{"name":"ENW-GROOT project","award":["OCENW.GROOT.2019.017"],"award-info":[{"award-number":["OCENW.GROOT.2019.017"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,9,4]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Proximity-based labeling approaches have proven highly valuable for uncovering protein\u2013protein interactions, yet their application to primary patient material remains challenging. Here, we present a workflow enabling the use of the antibody-based ProtA-Turbo proximity labeling system in both formalin-fixed paraffin-embedded (FFPE) and snap-frozen tissue specimens. Our method efficiently directs biotinylation to diverse antibody baits across tissues of different origins. Downstream mass spectrometry-based proteomics analyses demonstrate the specificity of the method by profiling the proximal proteome of H3K27ac-marked chromatin, the nuclear lamina-associated protein EMD, and the Ser2-phosphorylated POLR2A subunit of RNA polymerase II. Using this method, we identified cell-type-specific factors and transcriptional regulators in salivary gland carcinoma, healthy testis, and testicular cancer tissue sections. The ability to detect disease-associated complexes directly within their native, spatially resolved cellular context using ProtA-Turbo can provide new insights into the molecular basis of human disease and may reveal novel, potentially actionable factors with translational relevance.<\/jats:p>","DOI":"10.1021\/acs.jproteome.6c00086","type":"journal-article","created":{"date-parts":[[2026,8,11]],"date-time":"2026-08-11T11:02:08Z","timestamp":1786446128000},"page":"4563-4576","source":"Crossref","is-referenced-by-count":0,"title":["Antibody-Based\nProximity Labeling Reveals Bait-Proximal\nProteomes in Paraffin-Embedded and Snap-Frozen Tissue Samples"],"prefix":"10.1021","volume":"25","author":[{"ORCID":"https:\/\/orcid.org\/0009-0009-7665-5293","authenticated-orcid":true,"given":"Inge","family":"de Krijger","sequence":"first","affiliation":[{"name":"Radboud University Nijmegen , , ,","place":["Nijmegen, The Netherlands, 6525 GA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tilly W.","family":"Aalders","sequence":"additional","affiliation":[{"name":"Radboud University Medical Center , , ,","place":["Nijmegen, The Netherlands, 6525 GA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0836-6894","authenticated-orcid":true,"given":"Michiel","family":"Vermeulen","sequence":"additional","affiliation":[{"name":"Radboud University Nijmegen , , ,","place":["Nijmegen, The Netherlands, 6525 GA"]},{"name":"Netherlands Cancer Institute , , ,","place":["Amsterdam, The Netherlands, 1066 CX"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0381-6246","authenticated-orcid":true,"given":"Maria V.","family":"Luna-Velez","sequence":"additional","affiliation":[{"name":"Radboud University Medical Center , , ,","place":["Nijmegen, The Netherlands, 6525 GA"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"316","published-online":{"date-parts":[[2026,8,11]]},"reference":[{"issue":"7","key":"2026090409122879400_cit1","doi-asserted-by":"publisher","first-page":"1661","DOI":"10.1016\/j.cell.2021.02.055","article-title":"The next\nhorizon in precision oncology: Proteogenomics to inform cancer diagnosis\nand treatment","volume":"184","author":"Rodriguez","year":"2021","journal-title":"Cell"},{"issue":"1","key":"2026090409122879400_cit2","doi-asserted-by":"publisher","first-page":"269","DOI":"10.1186\/s12964-023-01310-1","article-title":"The development of proximity labeling\ntechnology and its applications in mammals, plants, and microorganisms","volume":"21","author":"Guo","year":"2023","journal-title":"Cell Commun. 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