PXD009797

PXD009797 is an original dataset announced via ProteomeXchange.

Title	Lys-C/Arg-C, a New Enzyme Combination for Next-Generation Proteomics
Description	Today, the most widely used bottom-up proteomics studies necessitate a proteolysis step prior to MS analysis. Trypsin is often the best protease in choice due to its high specificity and MS-favored proteolytic products. Trypsin has been challenged for its low cleavage efficiency at Lys-X bonds, and tandem Lys-C/trypsin digestion approach has been developed to alleviate the problem. However, the identification capacity of the two digestions often disagrees among different research groups. Herein, we report a new tandem digestion using Lys-C and Arg-C (Lys-C/Arg-C), which we have proven to be more efficient and specific than trypsin and Lys-C/trypsin approaches. Analysis of our previous data (Anal. Chem. 2018, 90, 1554-1559) revealed that both Lys-C and Arg-C perform better in trypsin-mode digestion. In particular for Arg-C, the identification capacity is increased to 2.6 times and even comparable with trypsin. The good complementarity, high digestion efficiency and high specificity of Lys-C and Arg-C prompt a tandem Lys-C/Arg-C digestion. We systematically evaluated the Lys-C/Arg-C digestion using qualitative and quantitative proteomics approaches and confirmed its superior performance in digestion efficiency, specificity and identification capacity to the currently widely used trypsin and Lys-C/trypsin digestions. As a result, we concluded that Lys-C/Arg-C digestion approach would be the choice of next-generation digestion approach for better results in both qualitative and quantitative proteomics studies.
HostingRepository	PRIDE
AnnounceDate	2018-07-24
AnnouncementXML	Submission_2018-07-24_07:31:47.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zhen Wu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	S-carboxamidoethyl-L-cysteine; monohydroxylated residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2018-05-16 05:44:23	ID requested
⏵ 1	2018-07-24 07:31:49	announced

Wu Z, Huang J, Huang J, Li Q, Zhang X, Lys-C/Arg-C, a More Specific and Efficient Digestion Approach for Proteomics Studies. Anal Chem, 90(16):9700-9707(2018) [pubmed]

curator keyword: Technical

submitter keyword: Lys-C / Arg-C / trypsin / DIA / mass spectrometry

Xumin Zhang
contact affiliation	State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200438, China
contact email	xumin_zhang@fudan.edu.cn
lab head
Zhen Wu
contact affiliation	State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University
contact email	wuz16@fudan.edu.cn
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2018/07/PXD009797

PRIDE project URI

• PRIDE
  1. PXD009797
     1. Label: PRIDE project
     2. Name: Lys-C/Arg-C, a New Enzyme Combination for Next-Generation Proteomics