Semi-targeted Lipidomics of Plant Acyl Lipids Using UPLC-HR-MS in Combination with a Data-Independent Acquisition Mode

2018 ◽  
pp. 137-155 ◽  
Author(s):  
Mohamed A. Salem ◽  
Patrick Giavalisco
Keyword(s):  
Data Independent Acquisition ◽  
Acquisition Mode ◽  
Acyl Lipids

scholarly journals Chemical profiling and total quality assessment of Isodon japonica using data-independent acquisition mode combined with superimposed multiple product ion UHPLC-Q-TOF-MS and chemometric analysis

RSC Advances ◽  
2019 ◽  
Vol 9 (3) ◽  
pp. 1403-1418 ◽  
Author(s):  
Yiran Jin ◽  
Tingting Tian ◽  
Yinghua Ma ◽  
Ludan Hou ◽  
Shuai Guan ◽  
...  
Keyword(s):  
Quality Assessment ◽  
Total Quality ◽  
Analytical Strategy ◽  
Chemical Profiling ◽  
Data Independent Acquisition ◽  
Acquisition Mode ◽  
Multiple Product ◽  
Using Data ◽  
Rapid Characterization ◽  
Tof Ms

In this paper, a combined analytical strategy was developed and aimed at rapid characterization and quantitation of ent-kaurane diterpenoids in Isodon japonica using UPLC-Q-TOF-MS/MS.

scholarly journals The Isotopic Ac-IP Tag Enables Multiplexed Proteome Quantification in Data-Independent Acquisition Mode

2021 ◽  
Author(s):  
Xiaobo Tian ◽  
Marcel P. de Vries ◽  
Hjalmar P. Permentier ◽  
Rainer Bischoff
Keyword(s):  
Data Independent Acquisition ◽  
Acquisition Mode

scholarly journals iq: an R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics

2020 ◽  
Vol 36 (8) ◽  
pp. 2611-2613 ◽  
Author(s):  
Thang V Pham ◽  
Alex A Henneman ◽  
Connie R Jimenez
Keyword(s):  
Open Source ◽  
State Of The Art ◽  
R Package ◽  
Protein Quantification ◽  
Supplementary Information ◽  
Label Free ◽  
Software Suite ◽  
Data Independent Acquisition ◽  
Free Data ◽  
Acquisition Mode

Abstract Summary We present an R package called iq to enable accurate protein quantification for label-free data-independent acquisition (DIA) mass spectrometry-based proteomics, a recently developed global approach with superior quantitative consistency. We implement the popular maximal peptide ratio extraction module of the MaxLFQ algorithm, so far only applicable to data-dependent acquisition mode using the software suite MaxQuant. Moreover, our implementation shows, for each protein separately, the validity of quantification over all samples. Hence, iq exports a state-of-the-art protein quantification algorithm to the emerging DIA mode in an open-source implementation. Availability and implementation The open-source R package is available on CRAN, https://github.com/tvpham/iq/releases and oncoproteomics.nl/iq. Supplementary information Supplementary data are available at Bioinformatics online.

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