Application of proteomics in cancer: recent trends and approaches for biomarkers discovery

YW Kwon, HS Jo, S Bae, Y Seo, P Song, M Song… - Frontiers in …, 2021 - frontiersin.org
Proteomics has become an important field in molecular sciences, as it provides valuable
information on the identity, expression levels, and modification of proteins. For example …

The emerging landscape of single-molecule protein sequencing technologies

JA Alfaro, P Bohländer, M Dai, M Filius, CJ Howard… - Nature …, 2021 - nature.com
Single-cell profiling methods have had a profound impact on the understanding of cellular
heterogeneity. While genomes and transcriptomes can be explored at the single-cell level …

Global detection of human variants and isoforms by deep proteome sequencing

P Sinitcyn, AL Richards, RJ Weatheritt… - Nature …, 2023 - nature.com
An average shotgun proteomics experiment detects approximately 10,000 human proteins
from a single sample. However, individual proteins are typically identified by peptide …

UniProt: the universal protein knowledgebase in 2021

Nucleic acids research, 2021 - academic.oup.com
The aim of the UniProt Knowledgebase is to provide users with a comprehensive, high-
quality and freely accessible set of protein sequences annotated with functional information …

A proximity-dependent biotinylation map of a human cell

CD Go, JDR Knight, A Rajasekharan, B Rathod… - Nature, 2021 - nature.com
Compartmentalization is a defining characteristic of eukaryotic cells, and partitions distinct
biochemical processes into discrete subcellular locations. Microscopy and biochemical …

Cancer-cell-derived GABA promotes β-catenin-mediated tumour growth and immunosuppression

D Huang, Y Wang, JW Thompson, T Yin… - Nature cell …, 2022 - nature.com
Many cancers have an unusual dependence on glutamine. However, most previous studies
have focused on the contribution of glutamine to metabolic building blocks and the energy …

Chemical proteomics reveals the target landscape of 1,000 kinase inhibitors

M Reinecke, P Brear, L Vornholz, BT Berger… - Nature Chemical …, 2024 - nature.com
Medicinal chemistry has discovered thousands of potent protein and lipid kinase inhibitors.
These may be developed into therapeutic drugs or chemical probes to study kinase biology …

Benchmarking commonly used software suites and analysis workflows for DIA proteomics and phosphoproteomics

R Lou, Y Cao, S Li, X Lang, Y Li, Y Zhang… - Nature …, 2023 - nature.com
A plethora of software suites and multiple classes of spectral libraries have been developed
to enhance the depth and robustness of data-independent acquisition (DIA) data …

Mining for encrypted peptide antibiotics in the human proteome

MDT Torres, MCR Melo, L Flowers… - Nature Biomedical …, 2022 - nature.com
The emergence of drug-resistant bacteria calls for the discovery of new antibiotics. Yet, for
decades, traditional discovery strategies have not yielded new classes of antimicrobial …

Meltome atlas—thermal proteome stability across the tree of life

A Jarzab, N Kurzawa, T Hopf, M Moerch, J Zecha… - Nature …, 2020 - nature.com
We have used a mass spectrometry-based proteomic approach to compile an atlas of the
thermal stability of 48,000 proteins across 13 species ranging from archaea to humans and …