PXD007863

PXD007863 is an original dataset announced via ProteomeXchange.

Title	Enzyme and Chemical Assisted N-Terminal Blocked Peptides Analysis, ENCHANT, as a Selective Proteomics Approach Complementary to Conventional Shotgun Approach
Description	Shotgun (bottom-up) approach has been widely applied in large-scale proteomics studies. The inherent shortages of shotgun approach lie in that the generated peptides often overwhelm the analytical capacity of current LC-MS/MS systems and that abundant proteins often hamper the identification of proteins in low abundance for highly complex samples. To reduce the sample complexity and relieve the problems caused by abundant proteins, herein we introduce a modified selective proteomics approach, termed ENCHANT, for enzyme and chemical assisted N-terminal blocked peptides analysis. Modified from our previous Nα-acetylome approach, ENCHANT aims to analyze three kinds of peptides, acetylated protein N-termini, N-terminal glutamine and N-terminal cysteine containing peptides. Application of ENCHANT to HeLa cells allowed to identify 3,375 proteins, 19.6% more than that by conventional shotgun approach. More importantly, ENCHANT demonstrated an excellent complementarity to conventional shotgun approach with the overlap of 34.5%. In terms of quantification using data independent acquisition (DIA) technology, ENCHANT resulted in 23.9% more quantified proteins than conventional shotgun approach with the overlap of 27.6%. Therefore, our results strongly suggest that ENCHANT is a promising selective proteomics approach complementary to conventional shotgun approach in both qualitative and quantitative proteomics studies.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:40:39.732.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jingnan Huang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	(R)-5-oxo-1; S-carboxamidoethyl-L-cysteine; monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2017-09-28 01:29:42	ID requested
1	2017-12-06 07:37:57	announced
⏵ 2	2024-10-22 04:40:42	announced	2024-10-22: Updated project metadata.

10.1021/acs.jproteome.7b00521;

Huang J, Wang J, Li Q, Zhang Y, Zhang X, Enzyme and Chemical Assisted N-Terminal Blocked Peptides Analysis, ENCHANT, as a Selective Proteomics Approach Complementary to Conventional Shotgun Approach. J Proteome Res, 17(1):212-221(2018) [pubmed]

curator keyword: Technical

submitter keyword: DIA, Single-charge ion inclusion, N-terminal blocked peptides,CNBr-activated Sepharose 4B

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
Jingnan Huang
contact affiliation	Fudan University
contact email	huangjingnan001@163.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD007863
     1. Label: PRIDE project
     2. Name: Enzyme and Chemical Assisted N-Terminal Blocked Peptides Analysis, ENCHANT, as a Selective Proteomics Approach Complementary to Conventional Shotgun Approach