Advanced AI-driven Bioinformatics Solutions for Performant Peptidomics

Novel knowledge from public life sciences data

Proteomics-derived epitopes for dramatically improved anticancer and antibacterial vaccine development

The Open Data Exchange Ecosystem in Proteomics: Evolving its Utility (ODEEP-EU)

A diaPASEF powered computational deep dive into the myotonic dystrophy type 1 liquid biopsy proteome

A Tale of Tissue and Text: Predictive proteome profiling and managing metadata mayhem

Bioinformatics innovations to build ion-networks into a cornerstone of clinical proteomics applications

Bringing Confidence to Species Identifications: Probabilistic and Proteogenomic Approaches for Single Organism Samples and Metaproteomes

Doctoral project Giulia Gonnelli

Doctoral project Kenneth Verheggen

Doctoral project Nicolas Housset

Doctoral project Sule Yilmaz-Rumpf

Doctoral project Surya Gupta

Improved data-driven bioinformatics tools to greatly extend neo- and xeno-epitope landscapes detected by immunopeptidomics.

Machine learning to the rescue: Enabling novel proteomics workflows with data-driven bioinformatics methods

Novel statistical strategies for differential PTM abundance analysis in proteomics

Single cell proteomics: from details on a single cell to tissue deconvolution

Where the very little matters very much: bio-informatics innovations for single cell proteomics on microbial cells

Building the Unipept Ecosystem: Empowering high-throughput metaproteomics data analysis for characterizing complex microbial communities.

Doctoral project Elke Debrie

Doctoral project Niklaas Colaert

Doctoral project Stijn Vandenbulcke

Methods for differential expression analysis in single-cell transcriptomics at the gene- and subgene level

Statistical methods for single cell proteomics

A computational framework for sensitive and specific quantitative metaproteomics

A computational pipeline for highly sensitive profiling of tissue leakage proteins in liquid biopsies

A diaPASEF powered computational deep dive into the myotonic dystrophy type 1 liquid biopsy proteome

A jump start for metaproteomics informatics

An integrated informatics platform for mass spectrometry-based protein assays

A novel, data driven-paradigm for the sensitive identification of phosphopeptides

A novel era in proteomics-based protein PTM discovery through deep learning approaches

A study of protein landscapes, their applications, and ensuring their longevity

Bioinformatics: from nucleotids to networks (N2N)

Computational analysis and integration of accross-Omics data

Context-aware identification of kinase-substrate association and protein phosphorylation through large scale proteomics experiment reprocessing.

FoldMod: The role of local amino acid interactions in protein folding, fold stability and the location of post-translational modifications

FWO Sabbatical Martens Lennaert

Improved data-driven bioinformatics tools to greatly extend neo- and xeno-epitope landscapes detected by immunopeptidomics.

MoDPA: Investigating diseases through Modification-Dependent Protein Associations

New knowledge of public data in the life sciences.

Novel feed ingredients from sustainable sources

Novel knowledge from public life sciences data

Novel statistics tools for reliable proteome-wide quantification of post-translational modifications

Novel statistics tools for reliable proteome-wide quantification of post-translational modifications.

Orthogonal reprocessing of public proteomics and metabolomics data to uncover the proteome-wide, metabolome-linked protein modification landscape.

ProteinContour: proteome-scale unraveling of the relation between post-translational modifications, biophysical properties, interactions and sub-cellular location of proteins.

Recognition and Validation of Druggable Targets from the Response to Cognitive Behaviour Therapy in Myotonic Dystrophy type 1 patients from Integrated -Omics Networks

SprInt: a novel platform for structural proteomics data integration.

Tackling the big metaproteomics identification challenge in hypercomplex application domains

The first genome-wide maps of the micropeptidome validated through large-scale reprocessing of public proteomics data

The online Tabloid Proteome: a unique resource to build and mine the protein association network.

Unipept Next: A differential, multi-omics, highly flexible Unipept

A new fragment-centric perspective on proteomics

A whole new role for Unipept: a framework for comparative metaproteomics analyses

Capture, dissemination and analysis of multiscale cell migration data for biological and clinical applications (MULTIMOT)

Comparative analysis of high-throughput metaproteomics data in Unipept

ELIXIR Infrastructure for Data and Services to strengthen Life-Sciences Research in Flanders

Integrated proteome-centric analysis of immune regulation

Putting the AI in DIA - building an ML-driven multi-modification engine

A way out of the reagents shortages: an MS-based diagnostic test focused on corona protein detection

Metabolic fingerprinting towards diagnosis and prognosis of cow's milk allergy in children.