A bright future for proteomics of health and disease. Introduction to the US HUPO 2021 themed issue – proteomics from single cell to systems biology in health and disease
Lindsay Pino, Reema Banarjee and Nathan Basisty introduce the Molecular Omics themed issue on proteomics from single cell to systems biology in health and disease.
Advances in stable isotope labeling: dynamic labeling for spatial and temporal proteomic analysis
Traditional SILAC labeling has been expanded with pulsed applications to uncover a new quantitative dimension of proteomics – temporal analysis. These techniques have aided in inspiring SILAC-based temporal and spatial labeling applications.
Deciphering O-glycoprotease substrate preferences with O-Pair Search
O-Pair search can be used to discover O-glycoprotease cleavage motifs. This workflow is demonstrated here for three O-glycoproteases, including immunomodulating metalloprotease (IMPa) from P. aeruginosa that is broadly useful for O-glycoproteomic applications.
Proteomic changes associated with racial background and sepsis survival outcomes
Plasma proteomics identified proteins in various immune pathways that may contribute to racial/ethnic disparities in sepsis survival outcomes.
Research Article
A knowledge graph representation learning approach to predict novel kinase–substrate interactions
In this work we present an approach to predict novel interaction partners for understudied kinases. Our approach involves constructing a biomedical knowledge graph and then using a triple walking algorithm to learn from this knowledge graph.
Rbm20 ablation is associated with changes in the expression of titin-interacting and metabolic proteins
Label-free quantitative proteomics identifies molecular correlates of dilated cardiomyopathy in rats lacking the muscle-specific splicing factor Rbm20.
Research Article
Macrophages secrete murinoglobulin-1 and galectin-3 to regulate neutrophil degranulation after myocardial infarction
Macrophages secrete murinoglobulin-1 to inhibit and galectin-3 to promote neutrophil degranulation to balance protease release and prevent excessive wall thinning.
Integrated proteomic and metabolomic analyses of the mitochondrial neurodegenerative disease MELAS
Integrated proteomics and metabolomics of patient fibroblasts revealed dysregulations in arginine biosynthesis, OXPHOS complexes, and bioenergetic pathways in MELAS, a mitochondrial neurodegenerative disease caused by mitochondrial DNA mutations.
About this collection
This themed collection, guest edited by Lindsay Pino, Nathan Basisty, Ying Ge, Stephanie Cologna, Yingming Zhao and Alexey Nesvizhskii, is in partnership with the U.S. Human Proteome Organization. The collection is dedicated to the 17th annual US HUPO conference: Proteomics from Single Cell to Systems Biology in Health and Disease, and showcases research from the meeting that improves our understanding of human biology and disease mechanisms.
New articles will be added as soon as they are published. Please return frequently to see the collection as it grows.