A5015856088- Advanced Proteomics Techniques and Applications
- Mass Spectrometry Techniques and Applications
- Biotin and Related Studies
- Bioinformatics and Genomic Networks
- Glycosylation and Glycoproteins Research
- Metabolomics and Mass Spectrometry Studies
- Bacterial Genetics and Biotechnology
- Single-cell and spatial transcriptomics
- Cell Image Analysis Techniques
- Protein Structure and Dynamics
- Molecular Biology Techniques and Applications
- Advanced Biosensing Techniques and Applications
- Immune Response and Inflammation
- Lipid Membrane Structure and Behavior
- Microbial Community Ecology and Physiology
University of Cambridge
2016-2021
Mapping the proteome Proteins function in context of their environment, so an understanding cellular processes requires a knowledge protein localization. Thul et al. used immunofluorescence microscopy to map 12,003 human proteins at single-cell level into 30 compartments and substructures (see Perspective by Horwitz Johnson). They validated results mass spectroscopy them model refine protein-protein interaction networks. The is highly spatiotemporally regulated. Many localize multiple...
Abstract Knowledge of the subcellular distribution proteins is vital for understanding cellular mechanisms. Capturing proteome in a single experiment has proven challenging, with studies focusing on specific compartments or assigning to niches low resolution and/or accuracy. Here we introduce hyperLOPIT, method that couples extensive fractionation, quantitative high-resolution accurate mass spectrometry multivariate data analysis. We apply hyperLOPIT pluripotent stem cell population whose...
The study of protein localisation has greatly benefited from high-throughput methods utilising cellular fractionation and proteomic profiling. Hyperplexed Localisation Organelle Proteins by Isotope Tagging (hyperLOPIT) is a well-established method in this area. It achieves high-resolution separation organelles subcellular compartments but relatively time- resource-intensive. As simpler alternative, we here develop after Differential ultraCentrifugation (LOPIT-DC) compare to the density...
Abstract Protein localisation and translocation between intracellular compartments underlie almost all physiological processes. The hyperLOPIT proteomics platform combines mass spectrometry with state-of-the-art machine learning to map the subcellular location of thousands proteins simultaneously. We combine global proteome analysis in a fully Bayesian framework elucidate spatiotemporal proteomic changes during lipopolysaccharide (LPS)-induced inflammatory response. report highly dynamic...
The cell is compartmentalised into complex micro-environments allowing an array of specialised biological processes to be carried out in synchrony. Determining a protein’s sub-cellular localisation one or more these compartments can therefore first step determining its function. High-throughput and high-accuracy mass spectrometry-based proteomic methods now shed light on the thousands proteins at once. Machine learning algorithms are then typically employed make protein-organelle...
Abstract The cell is compartmentalised into complex micro-environments allowing an array of specialised biological processes to be carried out in synchrony. Determining a protein’s sub-cellular localisation one or more these compartments can therefore first step determining its function. High-throughput and high-accuracy mass spectrometry-based proteomic methods now shed light on the thousands proteins at once. Machine learning algorithms are then typically employed make protein-organelle...
Abstract Hyperplexed Localisation of Organelle Proteins by Isotope Tagging (hyperLOPIT) is a well-established method for studying protein subcellular localisation in complex biological samples. As simpler alternative we developed second workflow named after Differential ultraCentrifugation (LOPIT-DC) which faster and less resource-intensive. We present the most comprehensive high-resolution mass spectrometry-based human dataset to date deliver flexible set proteomics protocols sample...