Mathias Uhlén

Dissecting autonomous enzyme variability in single cells

The paper uses single-cell spatial proteomics to show that metabolic enzyme expression and localization vary between cells, revealing autonomous metabolic heterogeneity.

The genetic architecture of dementia risk: how Alzheimer's disease vulnerability converges on lipid metabolism and immune cell networks

This paper maps dementia risk genes across tissues and cell types using HPA GeneSet Explorer, revealing convergent neuronal enrichment and disease-specific modules in Alzheimer's, Lewy body, and Frontotemporal dementias.

A cell type-resolved proteomic atlas of the human body

The paper constructs a cell type-resolved proteomic atlas of the human body using Deep Visual Proteomics, revealing protein abundance patterns and uncovering cancer-testis antigens in oocytes.

A high-resolution spatial map of cilia-associated proteins in the human fallopian tube

The paper creates a high-resolution spatial map of cilia-associated proteins in the human fallopian tube using integrated transcriptomics and proteomics.

Systems-level longitudinal immune profiling reveals individualized immunotypes and genetic associations

The paper integrates multi-omics data from 101 individuals over two years to identify stable immune patterns and genetic associations with immune cell types and functions.

Systematic Analysis of Human Tissue- and Cell-Specific Metabolic Models Identifies High-Sugar, High Fat Diet Induced Liver Dysregulation

The paper constructs tissue- and cell-type-specific metabolic models to study the effects of a high-sugar, high-fat diet on liver metabolism, revealing metabolic reprogramming and dysfunction.

A high-resolution subcellular map of proteins in cells with motile cilia

The paper develops a high-throughput workflow to map protein expression and subcellular localization in motile ciliated cells across five human tissues, identifying 180 proteins with varying functional evidence scores.

Intrinsic Heterogeneity of Primary Cilia Revealed Through Spatial Proteomics

The paper uses spatial proteomics to analyze primary cilia proteomes across cell lines, revealing cell-type specificity and single-cilia heterogeneity, and identifies novel cilia proteins and potential genetic variants.

Longitudinal analysis of genetic and environmental interplay in human metabolic profiles and the implication for metabolic health

The paper analyzes how genetics and environmental factors influence metabolic profiles over two years in 101 healthy individuals, identifying 22 genetically determined metabolites and 87 causal metabolite-protein associations.

Microbiome signatures of virulence in the oral-gut-brain axis influence Parkinson's disease and cognitive decline pathophysiology

This study investigates microbiome signatures in the oral-gut-brain axis and their role in Parkinson's disease and cognitive decline.

Multi-tissue network analysis reveals the effect of JNK inhibition on dietary sucrose-induced metabolic dysfunction in rats

This study investigates the effects of JNK inhibition on metabolic dysfunction caused by sucrose overconsumption in rats using multi-tissue network analysis.

Enhanced Computational and Experimental Approaches for Comparative Analysis of the Human Mycobiome

The paper develops and evaluates optimized computational and experimental methods for analyzing the human mycobiome, identifying novel fungal species in oral and gut samples.

Microglial states determine lesion dynamics in multiple sclerosis

The paper identifies microglial states associated with lesion expansion and remyelination in multiple sclerosis using spatial transcriptomics on human brain tissue.

A spatial single-cell type multiplex map of human spermatogenesis

This paper develops a framework integrating scRNA-seq with mIHC to create a high-resolution proteomic atlas of human spermatogenesis, revealing discrepancies between mRNA and protein expression.

Longitudinal Exposomics in a Multiomic Wellness Cohort Reveals Distinctive and Dynamic Environmental Chemical Mixtures in Blood

This study applies longitudinal exposomics to a multiomic cohort, revealing dynamic environmental chemical mixtures and their associations with biological markers over time.

A human stomach cell type transcriptome atlas

This study constructs a human stomach cell type transcriptome atlas using RNA-seq data from 359 individuals, identifying over 1600 cell type-enriched genes and male-specific chief cell genes linked to gastric cancer.

Metabolic modelling of the human gut microbiome in type 2 diabetes patients in response to metformin treatment

This study uses metabolic modeling of gut microbiome data from type 2 diabetes patients to show how metformin treatment alters microbial growth rates and metabolic pathways.

A tissue centric atlas of cell type transcriptome enrichment signatures

The paper generates a tissue-specific cell type enrichment atlas using bulk RNAseq data from 15 human organs, identifying lowly expressed genes and shared gene signatures across cell types.

Expression of substance P, NPY and their Receptors Is Altered in Major Depression

The paper examines changes in substance P, NPY, and their receptors in major depression by analyzing transcript levels in brain regions of suicide victims and controls.

Deciphering the determinants of recombinant protein yield across the human secretome

The paper identifies transcriptomic signatures that explain most of the variation in recombinant protein yield in CHO cells producing 2165 human secretome proteins.

Integrative functional analysis uncovers metabolic differences between Candida species

The paper identifies metabolic differences between Candida species using genomic, metabolomic, and gene expression data, highlighting unique pathways in the AGAu cluster.

Discovery of therapeutic agents targeting PKLR for NAFLD using drug repositioning

This study identifies PKLR as a therapeutic target for NAFLD and validates two drug candidates through in vitro and in vivo experiments.

Genome-wide single cell annotation of the human protein-coding genes

The paper annotates all human protein-coding genes with their function and spatial distribution across cell types using single-cell transcriptomics data and introduces a new classification tool.

Circulating proteins reveal prior use of menopausal hormonal therapy and increased risk of breast cancer

The paper identifies a proteomic signature associated with menopausal hormonal therapy use and increased breast cancer risk using a data-driven analysis of plasma proteins.

GutMicroNet: an interactive platform for gut microbiome interaction exploration

GutMicroNet provides an interactive platform to explore gut microbiome interaction networks using data from the Human Gut Microbiome Atlas.

A network-based approach reveals the dysregulated transcriptional regulation in non-alcohol fatty liver disease

This study identifies dysregulated transcriptional regulators in NAFLD using network analysis and integrates transcriptomic data with metabolic models.

Systems analysis reveals ageing-related perturbations in retinoids and sex hormones in Alzheimer's and Parkinson's diseases

This study identifies retinoids and sex hormone dysregulation as ageing-related features in Alzheimer's and Parkinson's disease subclasses using transcriptomic and metabolic analyses.

Integrative transcriptomic analysis of tissue-specific metabolic crosstalk after myocardial infarction

The paper analyzes transcriptomic changes in heart and other metabolically active tissues after myocardial infarction in mice, identifying common and tissue-specific biological responses.

iNetModels 2.0: an interactive visualization and database of multi-omics data

iNetModels 2.0 provides an interactive platform for visualizing and exploring multi-omics associations in human health and disease.

Combined Metabolic Activators decrease liver steatosis by activating mitochondrial metabolism in a Golden Syrian hamster study