Proteomics

Dataset Information

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Comparison of FFPE and fresh frozen prostate tissues using PCT SWATH

ABSTRACT: We compared the proteomes of FFPE and fresh frozen tissues (both tumorous and non-tumorous) from 16 prostate cancer patients using pressure cycling technology and SWATH-MS.

INSTRUMENT(S): TripleTOF 5600

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Prostate Adenocarcinoma Cell, Epithelial Cell

DISEASE(S): Prostate Adenocarcinoma

SUBMITTER: Tiannan Guo  

LAB HEAD: Ruedi Aebersold

PROVIDER: PXD004691 | Pride | 2019-10-07

REPOSITORIES: Pride

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Publications

High-throughput proteomic analysis of FFPE tissue samples facilitates tumor stratification.

Zhu Yi Y   Weiss Tobias T   Zhang Qiushi Q   Sun Rui R   Wang Bo B   Yi Xiao X   Wu Zhicheng Z   Gao Huanhuan H   Cai Xue X   Ruan Guan G   Zhu Tiansheng T   Xu Chao C   Lou Sai S   Yu Xiaoyan X   Gillet Ludovic L   Blattmann Peter P   Saba Karim K   Fankhauser Christian D CD   Schmid Michael B MB   Rutishauser Dorothea D   Ljubicic Jelena J   Christiansen Ailsa A   Fritz Christine C   Rupp Niels J NJ   Poyet Cedric C   Rushing Elisabeth E   Weller Michael M   Roth Patrick P   Haralambieva Eugenia E   Hofer Silvia S   Chen Chen C   Jochum Wolfram W   Gao Xiaofei X   Teng Xiaodong X   Chen Lirong L   Zhong Qing Q   Wild Peter J PJ   Aebersold Ruedi R   Guo Tiannan T  

Molecular oncology 20190918 11

Formalin-fixed, paraffin-embedded (FFPE), biobanked tissue samples offer an invaluable resource for clinical and biomarker research. Here, we developed a pressure cycling technology (PCT)-SWATH mass spectrometry workflow to analyze FFPE tissue proteomes and applied it to the stratification of prostate cancer (PCa) and diffuse large B-cell lymphoma (DLBCL) samples. We show that the proteome patterns of FFPE PCa tissue samples and their analogous fresh-frozen (FF) counterparts have a high degree o  ...[more]

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