The emerging role of mass spectrometry-based proteomics in drug discovery
Proteins are the main targets of most drugs; however, system-wide methods to monitor
protein activity and function are still underused in drug discovery. Novel biochemical …
protein activity and function are still underused in drug discovery. Novel biochemical …
Unbiased spatial proteomics with single-cell resolution in tissues
Mass spectrometry (MS)-based proteomics has become a powerful technology to quantify
the entire complement of proteins in cells or tissues. Here, we review challenges and recent …
the entire complement of proteins in cells or tissues. Here, we review challenges and recent …
Analysis of DIA proteomics data using MSFragger-DIA and FragPipe computational platform
Liquid chromatography (LC) coupled with data-independent acquisition (DIA) mass
spectrometry (MS) has been increasingly used in quantitative proteomics studies. Here, we …
spectrometry (MS) has been increasingly used in quantitative proteomics studies. Here, we …
A knowledge graph to interpret clinical proteomics data
Implementing precision medicine hinges on the integration of omics data, such as
proteomics, into the clinical decision-making process, but the quantity and diversity of …
proteomics, into the clinical decision-making process, but the quantity and diversity of …
Ultra‐high sensitivity mass spectrometry quantifies single‐cell proteome changes upon perturbation
AD Brunner, M Thielert, C Vasilopoulou… - Molecular systems …, 2022 - embopress.org
Single‐cell technologies are revolutionizing biology but are today mainly limited to imaging
and deep sequencing. However, proteins are the main drivers of cellular function and in …
and deep sequencing. However, proteins are the main drivers of cellular function and in …
Exploration of cell state heterogeneity using single-cell proteomics through sensitivity-tailored data-independent acquisition
V Petrosius, P Aragon-Fernandez, N Üresin… - Nature …, 2023 - nature.com
Single-cell resolution analysis of complex biological tissues is fundamental to capture cell-
state heterogeneity and distinct cellular signaling patterns that remain obscured with …
state heterogeneity and distinct cellular signaling patterns that remain obscured with …
Prioritized mass spectrometry increases the depth, sensitivity and data completeness of single-cell proteomics
Major aims of single-cell proteomics include increasing the consistency, sensitivity and
depth of protein quantification, especially for proteins and modifications of biological interest …
depth of protein quantification, especially for proteins and modifications of biological interest …
DIA-NN: neural networks and interference correction enable deep proteome coverage in high throughput
We present an easy-to-use integrated software suite, DIA-NN, that exploits deep neural
networks and new quantification and signal correction strategies for the processing of data …
networks and new quantification and signal correction strategies for the processing of data …
Streamlined single-cell proteomics by an integrated microfluidic chip and data-independent acquisition mass spectrometry
ST Gebreyesus, AA Siyal, RB Kitata, ESW Chen… - Nature …, 2022 - nature.com
Single-cell proteomics can reveal cellular phenotypic heterogeneity and cell-specific
functional networks underlying biological processes. Here, we present a streamlined …
functional networks underlying biological processes. Here, we present a streamlined …
Senescent cells promote tissue NAD+ decline during ageing via the activation of CD38+ macrophages
Declining tissue nicotinamide adenine dinucleotide (NAD) levels are linked to ageing and its
associated diseases. However, the mechanism for this decline is unclear. Here, we show …
associated diseases. However, the mechanism for this decline is unclear. Here, we show …