UM  > 中華醫藥研究院
Exploring the Potential of Data-Independent Acquisition Proteomics Using Untargeted All-Ion Quantitation: Application to Tumor Subtype Diagnosis
Yan, Zhixiang1,2; Yan, Ru1,2
2018-04-03
Source PublicationANALYTICAL CHEMISTRY
ISSN0003-2700
Volume90Issue:7Pages:4380-4388
Abstract

Maximizing the recovery of meaningful biological information can facilitate proteomics-guided early detection and precise treatment of diseases. However, the conventional protein and peptide level targeted quantification of untargeted data independent acquisition (DIA) such as sequential window acquisition of all theoretical spectra (SWATH) is not necessarily descriptive of all information. Untargeted all-ion quantification theoretically could retrieve more features in SWATH digital maps by circumventing the initial identification process but is intrinsically susceptible to errors because of the extreme complexity of proteome samples and the poor selectivity of a single ion. In this study, we optimized and applied the untargeted all-ion quantification of SWATH data to differentiate tumor subtypes. Large peptides and low abundant peptides benefited more from untargeted all-ion quantification. Top-ranked significant ions were linked to their corresponding ion envelops, where multiple correlated ions were used for measurement and only ion envelopes containing at least three ions with consistent intensity ratio were kept as refined differentiating features. Multivariate statistical analysis revealed that for the tested data set, the refined markers discovered by untargeted SWATH analysis showed comparable diagnostic power to protein and peptide markers. Limitations and benefits of the approach are further discussed.

DOIhttp://doi.org/10.1021/acs.analchem.7b03920
URLView the original
Indexed BySCI
Language英语
WOS Research AreaChemistry
WOS SubjectChemistry, Analytical
WOS IDWOS:000429385800023
PublisherAMER CHEMICAL SOC
The Source to ArticleWOS
Fulltext Access
Citation statistics
Cited Times [WOS]:1   [WOS Record]     [Related Records in WOS]
Document TypeJournal article
CollectionInstitute of Chinese Medical Sciences
Corresponding AuthorYan, Ru
Affiliation1.State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Taipa, Macao, China
2.Zhuhai UM Science & Technology Research Institute, Zhuhai 519080, China
First Author AffilicationInstitute of Chinese Medical Sciences
Corresponding Author AffilicationInstitute of Chinese Medical Sciences
Recommended Citation
GB/T 7714
Yan, Zhixiang,Yan, Ru. Exploring the Potential of Data-Independent Acquisition Proteomics Using Untargeted All-Ion Quantitation: Application to Tumor Subtype Diagnosis[J]. ANALYTICAL CHEMISTRY,2018,90(7):4380-4388.
APA Yan, Zhixiang,&Yan, Ru.(2018).Exploring the Potential of Data-Independent Acquisition Proteomics Using Untargeted All-Ion Quantitation: Application to Tumor Subtype Diagnosis.ANALYTICAL CHEMISTRY,90(7),4380-4388.
MLA Yan, Zhixiang,et al."Exploring the Potential of Data-Independent Acquisition Proteomics Using Untargeted All-Ion Quantitation: Application to Tumor Subtype Diagnosis".ANALYTICAL CHEMISTRY 90.7(2018):4380-4388.
Related Services
Recommend this item
Bookmark
Usage statistics
Export to Endnote
Google Scholar
Similar articles in Google Scholar
[Yan, Zhixiang]'s Articles
[Yan, Ru]'s Articles
Baidu academic
Similar articles in Baidu academic
[Yan, Zhixiang]'s Articles
[Yan, Ru]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[Yan, Zhixiang]'s Articles
[Yan, Ru]'s Articles
Terms of Use
No data!
Social Bookmark/Share
All comments (0)
No comment.
 

Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.