{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T18:20:48Z","timestamp":1790878848225,"version":"4.1.0"},"reference-count":25,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:00:00Z","timestamp":1722470400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"},{"start":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:00:00Z","timestamp":1722470400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"}],"funder":[{"DOI":"10.13039\/501100020145","name":"Calgary Firefighters Burn Treatment Society","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100020145","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000038","name":"Natural Sciences and Engineering Research Council of Canada","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000038","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Sci Rep"],"DOI":"10.1038\/s41598-024-68377-9","type":"journal-article","created":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:15:48Z","timestamp":1722471348000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["Targeted proteomic approach for quantification of collagen type I and type III in formalin-fixed paraffin-embedded tissue"],"prefix":"10.1038","volume":"14","author":[{"given":"Nicole L.","family":"Rosin","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tara M. L.","family":"Winstone","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Margaret","family":"Kelley","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jeff","family":"Biernaskie","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Antoine","family":"Dufour","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dennis J.","family":"Orton","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2024,8,1]]},"reference":[{"key":"68377_CR1","doi-asserted-by":"publisher","first-page":"33","DOI":"10.1016\/j.tig.2003.11.004","volume":"20","author":"J Myllyharju","year":"2004","unstructured":"Myllyharju, J. & Kivirikko, K. I. Collagens, modifying enzymes and their mutations in humans, flies and worms. Trends Genet. 20, 33\u201343. https:\/\/doi.org\/10.1016\/j.tig.2003.11.004 (2004).","journal-title":"Trends Genet."},{"key":"68377_CR2","doi-asserted-by":"publisher","first-page":"7","DOI":"10.26502\/fccm.92920302","volume":"2023","author":"D Singh","year":"2023","unstructured":"Singh, D., Rai, V. & Agrawal, D. K. Regulation of collagen I and collagen III in tissue injury and regeneration. Cardiol. Cardiovasc. Med. 2023, 7. https:\/\/doi.org\/10.26502\/fccm.92920302 (2023).","journal-title":"Cardiol. Cardiovasc. Med."},{"key":"68377_CR3","doi-asserted-by":"publisher","first-page":"4717","DOI":"10.1016\/j.cell.2022.11.004","volume":"185","author":"S Sinha","year":"2022","unstructured":"Sinha, S. et al. Fibroblast inflammatory priming determines regenerative versus fibrotic skin repair in reindeer. Cell 185, 4717-4736.e25. https:\/\/doi.org\/10.1016\/j.cell.2022.11.004 (2022).","journal-title":"Cell"},{"key":"68377_CR4","doi-asserted-by":"publisher","first-page":"23","DOI":"10.3390\/ijms231810509","volume":"2022","author":"K Song","year":"2022","unstructured":"Song, K. et al. Collagen remodeling along cancer progression providing a novel opportunity for cancer diagnosis and treatment. Int. J. Mol. Sci. 2022, 23. https:\/\/doi.org\/10.3390\/ijms231810509 (2022).","journal-title":"Int. J. Mol. Sci."},{"key":"68377_CR5","doi-asserted-by":"publisher","first-page":"107","DOI":"10.1007\/s11010-006-2388-1","volume":"283","author":"K Stevenson","year":"2006","unstructured":"Stevenson, K., Kucich, U., Whitbeck, C., Levin, R. M. & Howard, P. S. Functional changes in bladder tissue from type III collagen-deficient mice. Mol. Cell. Biochem. 283, 107\u2013114. https:\/\/doi.org\/10.1007\/s11010-006-2388-1 (2006).","journal-title":"Mol. Cell. Biochem."},{"key":"68377_CR6","doi-asserted-by":"crossref","unstructured":"Pauschinger, M. et al. Dilated cardiomyopathy is associated with significant changes in collagen type I\/III ratio (1999). http:\/\/www.circulationaha.org.","DOI":"10.1161\/01.CIR.99.21.2750"},{"key":"68377_CR7","doi-asserted-by":"publisher","first-page":"1157","DOI":"10.3892\/mmr.2014.2267","volume":"10","author":"B Qiu","year":"2014","unstructured":"Qiu, B. et al. Measurement of hydroxyproline in collagen with three different methods. Mol. Med. Rep. 10, 1157\u20131163. https:\/\/doi.org\/10.3892\/mmr.2014.2267 (2014).","journal-title":"Mol. Med. Rep."},{"key":"68377_CR8","doi-asserted-by":"publisher","first-page":"3498","DOI":"10.1021\/pr300130t","volume":"11","author":"RW Sprung","year":"2012","unstructured":"Sprung, R. W. et al. Precision of multiple reaction monitoring mass spectrometry analysis of formalin-fixed, paraffin-embedded tissue. J. Proteome Res. 11, 3498\u20133505. https:\/\/doi.org\/10.1021\/pr300130t (2012).","journal-title":"J. Proteome Res."},{"key":"68377_CR9","doi-asserted-by":"publisher","first-page":"441","DOI":"10.1002\/pmic.201300311","volume":"14","author":"C Steiner","year":"2014","unstructured":"Steiner, C. et al. Applications of mass spectrometry for quantitative protein analysis in formalin-fixed paraffin-embedded tissues. Proteomics 14, 441\u2013451. https:\/\/doi.org\/10.1002\/pmic.201300311 (2014).","journal-title":"Proteomics"},{"key":"68377_CR10","doi-asserted-by":"publisher","first-page":"309","DOI":"10.1002\/mas.21600","volume":"39","author":"NA van Huizen","year":"2020","unstructured":"van Huizen, N. A., Ijzermans, J. N. M., Burgers, P. C. & Luider, T. M. Collagen analysis with mass spectrometry. Mass Spectrom. Rev. 39, 309\u2013335. https:\/\/doi.org\/10.1002\/mas.21600 (2020).","journal-title":"Mass Spectrom. Rev."},{"key":"68377_CR11","doi-asserted-by":"publisher","first-page":"3483","DOI":"10.1002\/jssc.200800351","volume":"31","author":"S Pataridis","year":"2008","unstructured":"Pataridis, S., Eckhardt, A., Mikul\u00edkov\u00e1, K., Sedl\u00e1kov\u00e1, P. & Mik\u0161\u00edk, I. Identification of collagen types in tissues using HPLC-MS\/MS. J. Sep. Sci. 31, 3483\u20133488. https:\/\/doi.org\/10.1002\/jssc.200800351 (2008).","journal-title":"J. Sep. Sci."},{"key":"68377_CR12","doi-asserted-by":"publisher","first-page":"5890","DOI":"10.1021\/pr300656r","volume":"11","author":"H Montgomery","year":"2012","unstructured":"Montgomery, H. et al. Proteomic profiling of breast tissue collagens and site-specific characterization of hydroxyproline residues of collagen alpha-1-(I). J. Proteome Res. 11, 5890\u20135902. https:\/\/doi.org\/10.1021\/pr300656r (2012).","journal-title":"J. Proteome Res."},{"key":"68377_CR13","doi-asserted-by":"publisher","first-page":"10012","DOI":"10.1016\/j.mcpro.2022.100212","volume":"21","author":"C Gaither","year":"2022","unstructured":"Gaither, C., Popp, R., Zahedi, R. P. & Borchers, C. H. Multiple reaction monitoring-mass spectrometry enables robust quantitation of plasma proteins regardless of whole blood processing delays that may occur in the clinic. Mol. Cell. Proteom. 21, 10012. https:\/\/doi.org\/10.1016\/j.mcpro.2022.100212 (2022).","journal-title":"Mol. Cell. Proteom."},{"key":"68377_CR14","doi-asserted-by":"publisher","first-page":"e1000412","DOI":"10.1371\/journal.pbio.1000412","volume":"8","author":"C Kilkenny","year":"2010","unstructured":"Kilkenny, C., Browne, W. J., Cuthill, I. C., Emerson, M. & Altman, D. G. Improving bioscience research reporting: The ARRIVE guidelines for reporting animal research. PLOS Biol. 8, e1000412. https:\/\/doi.org\/10.1371\/journal.pbio.1000412 (2010).","journal-title":"PLOS Biol."},{"key":"68377_CR15","doi-asserted-by":"publisher","first-page":"100","DOI":"10.1002\/path.5420","volume":"251","author":"F Coscia","year":"2020","unstructured":"Coscia, F. et al. A streamlined mass spectrometry\u2013based proteomics workflow for large-scale FFPE tissue analysis. J. Pathol. 251, 100\u2013112. https:\/\/doi.org\/10.1002\/path.5420 (2020).","journal-title":"J. Pathol."},{"key":"68377_CR16","doi-asserted-by":"publisher","first-page":"8","DOI":"10.3389\/fmed.2021.657313","volume":"2021","author":"M Garc\u00eda-Vence","year":"2021","unstructured":"Garc\u00eda-Vence, M. et al. Protein extraction from FFPE kidney tissue samples: A review of the literature and characterization of techniques. Front. Med. 2021, 8. https:\/\/doi.org\/10.3389\/fmed.2021.657313 (2021).","journal-title":"Front. Med."},{"issue":"2023","key":"68377_CR17","doi-asserted-by":"publisher","first-page":"D1539","DOI":"10.1093\/nar\/gkac1040","volume":"51","author":"EW Deutsch","year":"2023","unstructured":"Deutsch, E. W. et al. The ProteomeXchange consortium at 10 years: 2023 update. Nucleic Acids Res. 51(2023), D1539\u2013D1548. https:\/\/doi.org\/10.1093\/nar\/gkac1040 (2023).","journal-title":"Nucleic Acids Res."},{"key":"68377_CR18","doi-asserted-by":"publisher","first-page":"966","DOI":"10.1093\/bioinformatics\/btq054","volume":"26","author":"B MacLean","year":"2010","unstructured":"MacLean, B. et al. Skyline: An open source document editor for creating and analyzing targeted proteomics experiments. Bioinformatics 26, 966\u2013968. https:\/\/doi.org\/10.1093\/bioinformatics\/btq054 (2010).","journal-title":"Bioinformatics"},{"key":"68377_CR19","doi-asserted-by":"publisher","first-page":"3573","DOI":"10.1016\/j.cell.2021.04.048","volume":"184","author":"Y Hao","year":"2021","unstructured":"Hao, Y. et al. Integrated analysis of multimodal single-cell data. Cell 184, 3573-3587.e29. https:\/\/doi.org\/10.1016\/j.cell.2021.04.048 (2021).","journal-title":"Cell"},{"key":"68377_CR20","doi-asserted-by":"publisher","first-page":"106","DOI":"10.3109\/10409231003627991","volume":"45","author":"KL Gorres","year":"2010","unstructured":"Gorres, K. L. & Raines, R. T. Prolyl 4-hydroxylase. Crit. Rev. Biochem. Mol. Biol. 45, 106\u2013124. https:\/\/doi.org\/10.3109\/10409231003627991 (2010).","journal-title":"Crit. Rev. Biochem. Mol. Biol."},{"key":"68377_CR21","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/s12931-021-01801-0","volume":"22","author":"H Jessen","year":"2021","unstructured":"Jessen, H. et al. Turnover of type I and III collagen predicts progression of idiopathic pulmonary fibrosis. Respir. Res. 22, 1. https:\/\/doi.org\/10.1186\/s12931-021-01801-0 (2021).","journal-title":"Respir. Res."},{"key":"68377_CR22","doi-asserted-by":"publisher","first-page":"2956","DOI":"10.1038\/s41596-020-0356-y","volume":"15","author":"K Buczak","year":"2020","unstructured":"Buczak, K. et al. Spatially resolved analysis of FFPE tissue proteomes by quantitative mass spectrometry. Nat. Protoc. 15, 2956\u20132979. https:\/\/doi.org\/10.1038\/s41596-020-0356-y (2020).","journal-title":"Nat. Protoc."},{"key":"68377_CR23","doi-asserted-by":"publisher","first-page":"3285","DOI":"10.1158\/0008-5472.CAN-12-3963","volume":"73","author":"DM Gilkes","year":"2013","unstructured":"Gilkes, D. M. et al. Collagen prolyl hydroxylases are essential for breast cancer metastasis. Cancer Res. 73, 3285\u20133296. https:\/\/doi.org\/10.1158\/0008-5472.CAN-12-3963 (2013).","journal-title":"Cancer Res."},{"key":"68377_CR24","doi-asserted-by":"publisher","first-page":"586","DOI":"10.3389\/fimmu.2021.645548","volume":"12","author":"E Tsitoura","year":"2021","unstructured":"Tsitoura, E. et al. Collagen 1a1 expression by airway macrophages increases in fibrotic ILDs and is associated with FVC decline and increased mortality. Front. Immunol. 12, 586. https:\/\/doi.org\/10.3389\/fimmu.2021.645548 (2021).","journal-title":"Front. Immunol."},{"key":"68377_CR25","doi-asserted-by":"publisher","first-page":"1724","DOI":"10.1021\/acs.jproteome.6b00156","volume":"15","author":"YP Kang","year":"2016","unstructured":"Kang, Y. P. et al. Metabolic profiling regarding pathogenesis of idiopathic pulmonary fibrosis. J. Proteome Res. 15, 1724. https:\/\/doi.org\/10.1021\/acs.jproteome.6b00156 (2016).","journal-title":"J. Proteome Res."}],"container-title":["Scientific Reports"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-68377-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-68377-9","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-68377-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:16:17Z","timestamp":1722471377000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-68377-9"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,8,1]]},"references-count":25,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2024,12]]}},"alternative-id":["68377"],"URL":"https:\/\/doi.org\/10.1038\/s41598-024-68377-9","relation":{"has-preprint":[{"id-type":"doi","id":"10.21203\/rs.3.rs-4018449\/v1","asserted-by":"object"}]},"ISSN":["2045-2322"],"issn-type":[{"value":"2045-2322","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,8,1]]},"assertion":[{"value":"5 March 2024","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"23 July 2024","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"1 August 2024","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"17769"}}