Markus Ralser

The paper shows that alpha-synuclein phase separation can form Lewy body-like structures without pre-existing seeds, suggesting a new mechanism for neurodegeneration.

The paper introduces vampW, a Bayesian method for joint variable selection in omic biomarkers and time-to-event data, showing reduced false discoveries and improved prediction.

The paper creates a proteoform-resolved atlas of the human plasma proteome, revealing extensive proteoform diversity and highlighting discrepancies between proteomic platforms.

The paper performs genome-wide association studies on 439 high-abundance serum proteins in 15,035 Scottish individuals, identifying 1,553 SNP signals and 13 putative causal protein-outcome associations.

This paper develops a microbial platform to study Rubisco oxygenase activity in vivo by linking it to bacterial growth, enabling genetic screening and evolution of enzyme variants.

The paper identifies human metabolites, particularly creatinine, that reduce the efficacy of the antifungal drug flucytosine by interfering with its uptake.

The paper compares gene function and expression in dormant cells of yeast spores and killifish diapause embryos, finding conserved transcriptomic and proteomic changes across species.

This study reprograms yeast telomeres to human-like sequences and identifies adaptive mutations that allow survival and fitness recovery.

The paper identifies genetic and environmental factors influencing multicellular-like phenotypes in fission yeast through experimental and genomic analyses.

This study identifies Bro1 as a central integrator linking TOR signalling to metabolic adaptation and longevity in fission yeast.

The paper evaluates ZT Scan DIA, a proteomics method combining scanning DIA with ion trapping, showing improved precursor and protein identification, quantification, and bias reduction in multi-species mixtures.

The paper observes decreased molecular crowding during yeast to filamentous growth transition in C. albicans, linked to reduced ribosome concentration and increased cytoplasmic volume.

This study shows that fluconazole tolerance in fungi is linked to decreased cytoplasmic fluidity and increased heterogeneity, mediated by changes in ribosome dynamics and P-body formation.

This study compares host metabolic and signaling responses to SARS-CoV-2 variants, finding that Omicron causes a more restrained response compared to pre-Omicron variants.

The paper introduces DeepTaskGen, a deep learning method that generates synthetic task-based contrast maps from resting-state fMRI data, outperforming benchmarks and enabling biomarker development for cognitive tasks.

This study identifies age-related rewiring of type I IFN signaling in immune cells linked to increased inflammation and altered antibody responses in COVID-19.

This study identifies 34 drugs that affect antifungal efficacy in Candida albicans, with some promoting resistance when combined with fluconazole.

This study uses proteomics to analyze glucose-stimulated insulin secretion in rat beta cells, finding that fatty acid metabolism plays a key role in the process.

This study uses AlphaFold2 to analyze how metabolism influenced enzyme structural evolution across 400 million years by examining 11,269 enzyme structures and their metabolic reactions.

The paper quantifies yeast cell responses to varying metal ions, revealing widespread proteomic and genetic impacts and common metal responsiveness properties.

Haplomics is a Snakemake pipeline for haplotype-based association analysis in GWAS loci, identifying significant associations in a multi-omics study.

This study examines how bacterial proteomes and metabolomes change in response to interspecies interactions in gut microbiota co-cultures, revealing extensive molecular reorganization and emergent metabolic pathways.

The paper identifies haplotypes at the FAM47E-SHROOM3 locus associated with kidney function, electrolyte, and hematological traits in a population sample.

The paper links genome to proteome in yeast progeny to identify variants controlling proteome diversity and predict their fitness effects under stress.

The paper quantifies proteomic effects of aneuploidy in natural yeast isolates, finding chromosome-wide dosage compensation in the proteome but not transcriptome.

The paper quantifies transcriptomes and proteomes across 942 yeast isolates, showing weak correlation between mRNA and protein levels and distinct genetic control mechanisms.

The paper maps enzyme activation networks in yeast, revealing widespread regulatory crosstalk between metabolic pathways and highlighting the role of essential metabolites in metabolic plasticity.

This study identifies Cystatin C as a glucocorticoid-responsive factor that recruits Trem2+ macrophages and predicts immunotherapy failure in cancer.

The paper identifies three novel components of the yeast m6A methyltransferase complex and reveals their distinct m6A-dependent and independent roles in meiosis and mating.

The paper records proteomes for non-essential gene knock-outs in yeast to uncover principles of protein expression and annotate gene function.