Advances in data‐independent acquisition mass spectrometry towards comprehensive digital proteome landscape

RB Kitata, JC Yang, YJ Chen - Mass spectrometry reviews, 2023 - Wiley Online Library
The data‐independent acquisition mass spectrometry (DIA‐MS) has rapidly evolved as a
powerful alternative for highly reproducible proteome profiling with a unique strength of …

Subcellular proteomics

JA Christopher, C Stadler, CE Martin… - Nature Reviews …, 2021 - nature.com
The eukaryotic cell is compartmentalized into subcellular niches, including membrane-
bound and membrane-less organelles. Proteins localize to these niches to fulfil their …

Increasing the throughput of sensitive proteomics by plexDIA

J Derks, A Leduc, G Wallmann, RG Huffman… - Nature …, 2023 - nature.com
Current mass spectrometry methods enable high-throughput proteomics of large sample
amounts, but proteomics of low sample amounts remains limited in depth and throughput. To …

Protein contaminants matter: building universal protein contaminant libraries for DDA and DIA proteomics

AM Frankenfield, J Ni, M Ahmed… - Journal of proteome …, 2022 - ACS Publications
Mass spectrometry-based proteomics is constantly challenged by the presence of
contaminant background signals. In particular, protein contaminants from reagents and …

A review of the current state of single-cell proteomics and future perspective

R Ahmad, B Budnik - Analytical and Bioanalytical Chemistry, 2023 - Springer
Single-cell methodologies and technologies have started a revolution in biology which until
recently has primarily been limited to deep sequencing and imaging modalities. With the …

Recent developments in data independent acquisition (DIA) mass spectrometry: application of quantitative analysis of the brain proteome

KW Li, MA Gonzalez-Lozano, F Koopmans… - Frontiers in molecular …, 2020 - frontiersin.org
Mass spectrometry is the driving force behind current brain proteome analysis. In a typical
proteomics approach, a protein isolate is digested into tryptic peptides and then analyzed by …

Comparison of quantitative mass spectrometric methods for drug target identification by thermal proteome profiling

AL George, FR Sidgwick, JE Watt… - Journal of Proteome …, 2023 - ACS Publications
Thermal proteome profiling (TPP) provides a powerful approach to studying proteome-wide
interactions of small therapeutic molecules and their target and off-target proteins …

Applying multi‐omics toward tumor microbiome research

N Zhang, S Kandalai, X Zhou, F Hossain, Q Zheng - iMeta, 2023 - Wiley Online Library
Rather than a “short‐term tenant,” the tumor microbiome has been shown to play a vital role
as a “permanent resident,” affecting carcinogenesis, cancer development, metastasis, and …

Clinical proteomics for solid organ tissues

WS Phipps, MR Kilgore, JJ Kennedy… - Molecular & Cellular …, 2023 - ASBMB
The evaluation of biopsied solid organ tissue has long relied on visual examination using a
microscope. Immunohistochemistry is critical in this process, labeling and detecting cell …

Recent advance in the investigation of aquatic “blue foods” at a molecular level: A proteomics strategy

Y Wang, Y Chang, H Hou, J Wang, C Xue - Trends in Food Science & …, 2023 - Elsevier
Background Fish and other aquatic foods (“blue foods”), possessing advantages of large
resources, species diversity, and high nutritional values, are becoming very important food …