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Mass spectrometry\u2010based targeted proteomics has demonstrated great potential in quantifying proteins from formalin\u2010fixed paraffin\u2010embedded (FFPE) and (fresh) frozen biopsy tissues. Here we provide a comprehensive tissue\u2010specific spectral library for targeted proteomic analysis of prostate tissue samples. Benign and malignant FFPE prostate tissue samples were processed into peptide samples by pressure cycling technology (PCT)\u2010assisted sample preparation, and fractionated with high\u2010pH reversed phase liquid chromatography (RPLC). Based on data\u2010dependent acquisition (DDA) MS analysis using a TripleTOF 6600, we built a library containing 108,533 precursors, 84,198 peptides and 9384 unique proteins (1% FDR). The applicability of the library was demonstrated in prostate specimens.<\/jats:p>","DOI":"10.1002\/pmic.202100147","type":"journal-article","created":{"date-parts":[[2021,11,20]],"date-time":"2021-11-20T04:13:58Z","timestamp":1637381638000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":13,"title":["A prostate cancer tissue specific spectral library for targeted proteomic analysis"],"prefix":"10.1002","volume":"22","author":[{"given":"Rui","family":"Sun","sequence":"first","affiliation":[{"name":"Zhejiang University  Hangzhou Zhejiang China"},{"name":"Key Laboratory of Structural Biology of Zhejiang Province School of Life Sciences Westlake University  Hangzhou China"},{"name":"Center for Infectious Disease Research Westlake Laboratory of Life Sciences and Biomedicine  Hangzhou China"},{"name":"Institute of Basic Medical Sciences Westlake Institute for Advanced Study  Hangzhou China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mengge","family":"Lyu","sequence":"additional","affiliation":[{"name":"Key Laboratory of Structural Biology of Zhejiang Province School of Life Sciences Westlake University  Hangzhou China"},{"name":"Center for Infectious Disease Research Westlake Laboratory of Life Sciences and Biomedicine  Hangzhou China"},{"name":"Institute of Basic Medical Sciences Westlake Institute for Advanced Study  Hangzhou China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shuang","family":"Liang","sequence":"additional","affiliation":[{"name":"Key Laboratory of Structural Biology of Zhejiang Province School of Life Sciences Westlake University  Hangzhou China"},{"name":"Center for Infectious Disease Research Westlake Laboratory of Life Sciences and Biomedicine  Hangzhou China"},{"name":"Institute of Basic Medical Sciences Westlake Institute for Advanced Study  Hangzhou China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Weigang","family":"Ge","sequence":"additional","affiliation":[{"name":"Westlake Omics (Hangzhou) Biotechnology Co., Ltd.  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