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The dataset to discover ESCC related proteins

ABSTRACT: To discover ESCC related proteins, we used SWATH to quantify the protein abundance between ESCC and adjacent tissues. Briefly, we pooled 10 ESCCtissues and their corresponding adjacent tissues for SWATH acquisition with three replicates.Three DDA repeats were also acquired with the pooled 10-paired ESCC tissue.The trypsin digested peptide mixture was analyzed by AB SCIEX 5600 (AB SCIEX).The database searching procedure was achieved using ProteinPilot v4.5 (AB Sciex). The database is IPI_homo_sapiens_V3.87.

INSTRUMENT(S): TripleTOF 5600

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Esophageal Epithelium

DISEASE(S): Esophagus Squamous Cell Carcinoma

SUBMITTER: Xue Hou

LAB HEAD: siqi liu

PROVIDER: PXD001764 | Pride | 2015-09-22

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	DDA_01.group	Other
	DDA_01.wiff	Wiff
	DDA_01.wiff.scan	Wiff
	DDA_02.group	Other
	DDA_02.wiff	Wiff

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Publications

Biomarker Discovery and Verification of Esophageal Squamous Cell Carcinoma Using Integration of SWATH/MRM.

Hou Guixue G Lou Xiaomin X Sun Yulin Y Xu Shaohang S Zi Jin J Wang Quanhui Q Zhou Baojin B Han Bo B Wu Lin L Zhao Xiaohang X Lin Liang L Liu Siqi S

Journal of proteome research 20150818 9

We propose an efficient integration of SWATH with MRM for biomarker discovery and verification when the corresponding ion library is well established. We strictly controlled the false positive rate associated with SWATH MS signals and carefully selected the target peptides coupled with SWATH and MRM. We collected 10 samples of esophageal squamous cell carcinoma (ESCC) tissues paired with tumors and adjacent regions and quantified 1758 unique proteins with FDR 1% at protein level using SWATH, in ...[more]

PMID: 26224564

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