Publications

Journal and conference papers, preprints and selected talks. An up-to-date record is also on ORCID. Joint first authorship is marked with an asterisk.

Journal & conference papers

1. 2026

   Joint modeling of whole-genome sequencing data for human height via approximate message passing

   A. Depope, J. Bajzik, M. Mondelli, M. R. Robinson

   JournalCell Genomics 6(5), 101162

   We develop gVAMP, an approximate message passing paradigm that fine-maps whole-genome sequence variants and gene burden scores conditional on all other measured DNA variation genome-wide, and show that the genetic architecture of height inferred from WGS data differs systematically from the one inferred from imputed SNPs.

   DOI Preprint PDF Code Abstract
2. 2026

   Joint Variable Selection in Proteomics Survival Models

   J. Bajzik*, A. Depope*, Y. Zolfimoselo, A. Sharipov, A. Lesayova, H. Klein, A. Richmond, S. Vernardis, A. Grauslys, S. Andrejev, A. Zelezniak, M. Ralser, R. E. Marioni, M. Mondelli, M. R. Robinson

   WorkshopICLR Workshop on Machine Learning for Genomics Explorations

   A scalable Bayesian framework for joint variable selection in time-to-event models. Applied to the UK Biobank Pharma Proteomics Project, it improves onset prediction by 26–33% relative to penalised Cox and baseline deep-learning approaches.

   OpenReview Preprint Code
3. 2024

   Inference of Genetic Effects via Approximate Message Passing

   A. Depope, M. Mondelli, M. R. Robinson

   ConferenceIEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP)

   DOI Slides

PhD thesis

1. 2026

   From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics

   A. Depope

   ThesisPhD thesis, Institute of Science and Technology Austria (ISTA). Supervisors: M. R. Robinson, M. Mondelli

   Develops two Bayesian inference frameworks based on vector approximate message passing: gVAMP, for joint modeling of millions of genetic variants in genome-wide association studies and polygenic risk prediction, and vampW, for survival analysis of proteomic data with right-censored disease onset times.

   PDF

Interdisciplinary collaborations

Statistical analysis and data visualisation for the Textile Recycling Group at TU Wien.

1. 2026

   DES formulation for recycling synthetic fibre textile waste containing elastane

   N. Depope, A. Depope, VM. Archodoulaki, A. Dabrowska, B. Lendl, A. Mautner, W. Ipsmiller, A. Bartl

   JournalWaste Management

   DOI
2. 2025

   Deep eutectic solvent as a solution for polyester/cotton textile recycling

   N. Depope, A. Depope, VM. Archodoulaki, W. Ipsmiller, A. Bartl

   JournalWaste Management 208, 115177

   DOI

Preprints & work in progress

1. 2026

   Joint Variable Selection for Omic Biomarkers in Time-to-Event Data

   J. Bajzik*, A. Depope*, et al.

   PreprintbioRxiv

   bioRxiv Code
2. WIP

   Incorporating summary statistics into the VAMP framework

   A. Depope*, J. Bajzik*, M. Mondelli, M. R. Robinson

   sgVAMP adapts gVAMP to the summary-statistics setting and extends it to a multi-cohort model that jointly estimates shared and population-specific signals across ancestries.

   Code
3. WIP

   Epigenome-wide association studies using approximate message passing

   J. Bajzik*, A. Depope, D. L. McCartney, M. J. Bauer, R. E. Marioni, M. Mondelli, M. R. Robinson

   gVAMPomi applied to the Generation Scotland study finds 92 trait-associated CpG probes conditional on all other probes, against 37 for the baseline MCMC approach.

   Code Abstract
4. WIP

   Detection of age-specific genetic effects for age-at-onset complex traits

   S. E. Ojavee*, A. Depope*

   An extension of the time-to-event BayesW model to two and three epochs, with Gibbs updates derived for interaction and epoch-specific parameters.

   PDF

Selected talks

1. 2024

   Inference of Genetic Effects via Approximate Message Passing

   OralIEEE ICASSP 2024, Seoul

   Slides
2. 2024

   Light-speed whole genome association testing and prediction

   Best student presentation52nd European Mathematical Genetics Meeting, Vienna

   Slides