Recent advances in proteomics and metabolomics in plants

S Yan, R Bhawal, Z Yin, TW Thannhauser… - Molecular Horticulture, 2022 - Springer
Over the past decade, systems biology and plant-omics have increasingly become the main
stream in plant biology research. New developments in mass spectrometry and …

Evolution of mass spectrometry instruments and techniques for blood proteomics

Y Zhao, Q Xue, M Wang, B Meng, Y Jiang… - Journal of Proteome …, 2023 - ACS Publications
Mass spectrometry (MS)-based blood proteomics is a crucial research focus in identifying
disease biomarkers. Blood serum or plasma is the most commonly used sample for such …

Targeted proteomics on its way to discovery

ML Mendes, G Dittmar - Proteomics, 2022 - Wiley Online Library
For a long time, targeted and discovery proteomics covered different corners of the detection
spectrum, with targeted proteomics focused on small target sets. This changed with the …

Acquisition and analysis of DIA-based proteomic data: A comprehensive survey in 2023

R Lou, W Shui - Molecular & Cellular Proteomics, 2024 - ASBMB
Data-independent acquisition (DIA) mass spectrometry (MS) has emerged as a powerful
technology for high-throughput, accurate, and reproducible quantitative proteomics. This …

Assembly of tomato fruit cuticles: a cross‐talk between the cutin polyester and cell wall polysaccharides

G Philippe, N Geneix, J Petit, F Guillon… - New …, 2020 - Wiley Online Library
The cuticle is an essential and ubiquitous biological polymer composite covering aerial plant
organs, whose structural component is the cutin polyester entangled with cell wall …

Comparative analyses of data independent acquisition mass spectrometric approaches: DIA, WiSIM‐DIA, and untargeted DIA

F Koopmans, JTC Ho, AB Smit, KW Li - Proteomics, 2018 - Wiley Online Library
Data‐independent acquisition (DIA) is an emerging technology for quantitative proteomics.
Current DIA focusses on the identification and quantitation of fragment ions that are …

Proteome analysis of rainbow trout (Oncorhynchus mykiss) liver responses to chronic heat stress using DIA/SWATH

J Quan, Y Kang, L Li, G Zhao, J Sun, Z Liu - Journal of proteomics, 2021 - Elsevier
Aquaculture of rainbow trout (Oncorhynchus mykiss) is severely hampered by high
temperatures in summer, and understanding the regulatory mechanisms controlling …

Dear-DIAXMBD: Deep Autoencoder Enables Deconvolution of Data-Independent Acquisition Proteomics

Q He, CQ Zhong, X Li, H Guo, Y Li, M Gao, R Yu, X Liu… - Research, 2023 - spj.science.org
Data-independent acquisition (DIA) technology for protein identification from mass
spectrometry and related algorithms is developing rapidly. The spectrum-centric analysis of …

Label‐free deep shotgun proteomics reveals protein dynamics during tomato fruit tissues development

J Szymanski, Y Levin, A Savidor, D Breitel… - The Plant …, 2017 - Wiley Online Library
Current innovations in mass‐spectrometry‐based technologies allow deep coverage of
protein expression. Despite its immense value and in contrast to transcriptomics, only a …

Quantitative Analysis of Target Peptides Related to Resistance Against Ascochyta Blight (Peyronellaea pinodes) in Pea

MÁ Castillejo, S Fondevilla-Aparicio… - Journal of proteome …, 2020 - ACS Publications
Peyronellaea pinodes causes Ascochyta blight, one of the major diseases in pea worldwide.
Cultivated pea plants have a low resistance to this disease. Although quantitative trait loci …