Dataset Information

Chemical and Random Additive Noise Elimination (CRANE) - case_study - multicenter_dataset

ABSTRACT: The effectiveness of the novel electrospray ionisation - liquid chromatography mass spectrometry (ESI-LC-MS) data de-noising technique, CRANE, is demonstrated by denoising the MS1 and all the MS2 windows of the multicentre, data-independent acquisi-tion (DIA) MS dataset from Navarro, et al. (2016).

INSTRUMENT(S): TripleTOF 5600

ORGANISM(S): Homo Sapiens (human) Escherichia Coli Saccharomyces Cerevisiae (baker's Yeast)

TISSUE(S): Cervical Carcinoma Cell

SUBMITTER: Akila Seneviratne

LAB HEAD: Qing Zhong

PROVIDER: PXD020529 | Pride | 2021-07-26

REPOSITORIES: Pride

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	CRANE_OSW0_protein.txt	Txt
	CRANE_OSW1_protein.txt	Txt
	Navarro_openSwathDecoySrlTsv_32w_fix.tsv	Tabular
	Navarro_openSwathDecoySrlTsv_32w_var.tsv	Tabular
	Navarro_openSwathDecoySrlTsv_64w_fix.tsv	Tabular

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Publications

A multicenter study benchmarks software tools for label-free proteome quantification.

Navarro Pedro P Kuharev Jörg J Gillet Ludovic C LC Bernhardt Oliver M OM MacLean Brendan B Röst Hannes L HL Tate Stephen A SA Tsou Chih-Chiang CC Reiter Lukas L Distler Ute U Rosenberger George G Perez-Riverol Yasset Y Nesvizhskii Alexey I AI Aebersold Ruedi R Tenzer Stefan S

Nature biotechnology 20161003 11

Consistent and accurate quantification of proteins by mass spectrometry (MS)-based proteomics depends on the performance of instruments, acquisition methods and data analysis software. In collaboration with the software developers, we evaluated OpenSWATH, SWATH 2.0, Skyline, Spectronaut and DIA-Umpire, five of the most widely used software methods for processing data from sequential window acquisition of all theoretical fragment-ion spectra (SWATH)-MS, which uses data-independent acquisition (DI ...[more]

PMID: 27701404

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