Mechanisms of assembly and remodelling of the extracellular matrix

A Naba - Nature Reviews Molecular Cell Biology, 2024 - nature.com
The extracellular matrix (ECM) is the complex meshwork of proteins and glycans that forms
the scaffold that surrounds and supports cells. It exerts key roles in all aspects of metazoan …

Top-down proteomics

DS Roberts, JA Loo, YO Tsybin, X Liu, S Wu… - Nature Reviews …, 2024 - nature.com
Proteoforms, which arise from post-translational modifications, genetic polymorphisms and
RNA splice variants, play a pivotal role as drivers in biology. Understanding proteoforms is …

An introduction to mass spectrometry-based proteomics

SR Shuken - Journal of proteome research, 2023 - ACS Publications
Mass spectrometry is unmatched in its versatility for studying practically any aspect of the
proteome. Because the foundations of mass spectrometry-based proteomics are complex …

Direct observation of glycans bonded to proteins and lipids at the single-molecule level

K Anggara, L Sršan, T Jaroentomeechai, X Wu… - Science, 2023 - science.org
Proteins and lipids decorated with glycans are found throughout biological entities, playing
roles in biological functions and dysfunctions. Current analytical strategies for these glycan …

Thermophoretic glycan profiling of extracellular vesicles for triple-negative breast cancer management

Y Li, S Zhang, C Liu, J Deng, F Tian, Q Feng… - Nature …, 2024 - nature.com
Triple-negative breast cancer (TNBC) is a highly metastatic and heterogeneous type of
breast cancer with poor outcomes. Precise, non-invasive methods for diagnosis, monitoring …

Prediction of glycopeptide fragment mass spectra by deep learning

Y Yang, Q Fang - Nature Communications, 2024 - nature.com
Deep learning has achieved a notable success in mass spectrometry-based proteomics and
is now emerging in glycoproteomics. While various deep learning models can predict …

Direct identification of complex glycans via a highly sensitive engineered nanopore

G Yao, Y Tian, W Ke, J Fang, S Ma, T Li… - Journal of the …, 2024 - ACS Publications
The crucial roles that glycans play in biological systems are determined by their structures.
However, the analysis of glycan structures still has numerous bottlenecks due to their …

Analysis and visualization of quantitative proteomics data using FragPipe-Analyst

Y Hsiao, H Zhang, GX Li, Y Deng, F Yu… - Journal of Proteome …, 2024 - ACS Publications
The FragPipe computational proteomics platform is gaining widespread popularity among
the proteomics research community because of its fast processing speed and user-friendly …

Roles of glycosylation at the cancer cell surface: opportunities for large scale glycoproteomics

T Čaval, F Alisson-Silva, F Schwarz - Theranostics, 2023 - pmc.ncbi.nlm.nih.gov
Cell surface glycosylation has a variety of functions, and its dysregulation in cancer
contributes to impaired signaling, metastasis and the evasion of the immune responses …

Critical considerations in N-glycoproteomics

TH Chau, A Chernykh, R Kawahara… - Current Opinion in …, 2023 - Elsevier
N-Glycoproteomics, the system-wide study of glycans asparagine-linked to protein carriers,
holds a unique and still largely untapped potential to provide deep insights into the …