High‐throughput, in‐depth and estimated absolute quantification of plasma proteome using data‐independent acquisition/mass spectrometry (“HIAP‐DIA”)

PROTEOMICS ◽  
2021 ◽  
pp. 2000264
Author(s):  
Yue Zhou ◽  
Zengqi Tan ◽  
Peng Xue ◽  
Yi Wang ◽  
Xiang Li ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
High Throughput ◽  
Absolute Quantification ◽  
Plasma Proteome ◽  
Data Independent Acquisition ◽  
Using Data

scholarly journals Proteomic comparison of osteoarthritic and reference human menisci using data-independent acquisition mass spectrometry

2020 ◽  
Vol 28 (8) ◽  
pp. 1092-1101
Author(s):  
E. Folkesson ◽  
A. Turkiewicz ◽  
N. Ali ◽  
M. Rydén ◽  
H.V. Hughes ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Data Independent Acquisition ◽  
Using Data

scholarly journals Proteomic characterization of the normal human medial meniscus body using data‐independent acquisition mass spectrometry

2020 ◽  
Vol 38 (8) ◽  
pp. 1735-1745 ◽  
Author(s):  
Elin Folkesson ◽  
Aleksandra Turkiewicz ◽  
Martin Rydén ◽  
Harini Velocity Hughes ◽  
Neserin Ali ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Medial Meniscus ◽  
Data Independent Acquisition ◽  
Normal Human ◽  
Using Data

scholarly journals Quantification and Identification of Post-Translational Modifications Using Modern Proteomics

2021 ◽  
pp. 225-235
Author(s):  
Anja Holtz ◽  
Nathan Basisty ◽  
Birgit Schilling
Keyword(s):  
Mass Spectrometry ◽  
High Resolution ◽  
High Throughput ◽  
High Resolution Mass Spectrometry ◽  
Label Free ◽  
Post Translational Modifications ◽  
Data Independent Acquisition ◽  
Lysine Residues ◽  
Detailed Protocol ◽  
Resolution Mass

AbstractPost-translational modifications (PTMs) occur dynamically, allowing cells to quickly respond to changes in the environment. Lysine residues can be targeted by several modifications including acylations (acetylation, succinylation, malonylation, glutarylation, and others), methylation, ubiquitination, and other modifications. One of the most efficient methods for the identification of post-translational modifications is utilizing immunoaffinity enrichment followed by high-resolution mass spectrometry. This workflow can be coupled with comprehensive data-independent acquisition (DIA) mass spectrometry to be a high-throughput, label-free PTM quantification approach. Below we describe a detailed protocol to process tissue by homogenization and proteolytically digest proteins, followed by immunoaffinity enrichment of lysine-acetylated peptides to identify and quantify relative changes of acetylation comparing different conditions.

scholarly journals Differential quantification of isobaric phosphopeptides using data-independent acquisition mass spectrometry

2016 ◽  
Vol 12 (8) ◽  
pp. 2385-2388 ◽  
Author(s):  
Simone Sidoli ◽  
Rina Fujiwara ◽  
Katarzyna Kulej ◽  
Benjamin A. Garcia
Keyword(s):  
Mass Spectrometry ◽  
Data Independent Acquisition ◽  
Modified Peptides ◽  
Using Data

Data-independent acquisition (DIA) is here applied to determine unexplored phosphorylation events on isobarically modified peptides.

scholarly journals Quantification of SAHA-Dependent Changes in Histone Modifications Using Data-Independent Acquisition Mass Spectrometry

2015 ◽  
Vol 14 (8) ◽  
pp. 3252-3262 ◽  
Author(s):  
Kimberly A. Krautkramer ◽  
Lukas Reiter ◽  
John M. Denu ◽  
James A. Dowell
Keyword(s):  
Mass Spectrometry ◽  
Histone Modifications ◽  
Data Independent Acquisition ◽  
Using Data

Targeted phosphoproteomics of insulin signaling using data-independent acquisition mass spectrometry

2015 ◽  
Vol 8 (380) ◽  
pp. rs6-rs6 ◽  
Author(s):  
Benjamin L. Parker ◽  
Guang Yang ◽  
Sean J. Humphrey ◽  
Rima Chaudhuri ◽  
Xiuquan Ma ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Insulin Signaling ◽  
Data Independent Acquisition ◽  
Using Data

Identification of Mature Atherosclerotic Plaque Proteome Signatures Using Data-Independent Acquisition Mass Spectrometry

2017 ◽  
Vol 17 (1) ◽  
pp. 164-176 ◽  
Author(s):  
Nicole Hansmeier ◽  
Josef Buttigieg ◽  
Pankaj Kumar ◽  
Shaneen Pelle ◽  
Kyoo Yoon Choi ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Atherosclerotic Plaque ◽  
Data Independent Acquisition ◽  
Using Data
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