Hanno Steen

The paper introduces yHydra, a foundation model for mass spectrometry-based proteomics that enables open and error-tolerant peptide and protein identification with improved performance.

The paper investigates the role of tanycytes and their organelles in waste removal in Alzheimer's hippocampus, linking Aβ and tau to structural roles in receptacle formation and disease pathology.

The paper identifies a multi-omics recovery factor predictive of long COVID using data from the IMPACC study, showing it can predict LC risk early after infection.

This study identifies immune subtypes in hospitalized COVID-19 patients linked to clinical outcomes and long COVID risk through longitudinal multi-omics analysis.

This study investigates viral reactivation in COVID-19 patients, finding associations between reactivation of specific virus families and clinical outcomes, including mortality and PASC symptoms.

PEPerMINT imputes missing peptide abundance values in proteomics using graph neural networks, outperforming existing methods across multiple datasets and missingness scenarios.

This study identifies immune programs linked to COVID-19 severity and mortality through longitudinal multi-omics analysis of 1,152 hospitalized patients.

The paper shows that kinase inhibition in Mtb affects regulatory networks, altering cell wall integrity, stress response, and energy production through transcription factor activity changes.

FLEXIQuant-LF quantifies protein modification extent in label-free proteomics data using robust regression, applied to APC/C mitosis data.

The paper re-analyzes proteomics data from ulcerative colitis colon biopsies, confirming NET upregulation and identifying ECM degradation and neutrophil maturation as novel pathological features.

DIA-Pipe enables automated identification and quantification of post-translational modification peptides from DIA data without a pre-existing spectral library.