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Technical University of Munich

Talks

Title Presenter Place
SimBu: Bias-aware simulation of bulk RNA-seq data with variable cell type composition Alexander Dietrich ECCB 2022 Sitges
Cracking the black box of deep sequence-based protein-protein-interaction prediction Judith Bernett ISMB/ECCB 2023 Lyon & GCB 2023 Hamburg & Genetoberfest 2023 Munich
Systematic Analysis of Alternative Splicing in Time Course Data of SARS-Cov2 infection development using Spycone Chit Tong Lio e:Med Meeting 2023 on Systems Medicine
DysRegNet: Patient-Specific and Confounder-Aware Dysregulated Network Inference Johannes Kersting GCB 2024 Bielefeld
Guiding questions to avoid data leakage in biological machine learning applications Judith Bernett GCB 2024 Bielefeld
How data leakage hinders real progress in the field of PPI prediction Judith Bernett AI4Life HSWT (online)
Batch-aware Probe Set Selection for Targeted ​Spatial Transcriptomics on Data Atlases​ Lena Straßer MOPITAS Symposium Copenhagen 2024
Cell-type deconvolution with omnideconv Alexander Dietrich COST Action Mye-InfoBank's Young Researcher Conference 2025 & Weihenstephan Bioinformatics Symposium 2025
A Nextflow Pipeline for Network-Based Disease Module Identification and Drug Repurposing Johannes Kersting ISMB/ECCB 2025 Liverpool
Enhancing Single-Cell RNA-seq Analysis: The LouvainSigned Algorithm for Improved Detection of Gene Communities Luis Nagai Weihenstephan Bioinformatics Symposium 2025
Drugst.One DREAM - Drug Repurposing through Expert Annotation and Modification (talk & tutorial) Lisa Spindler RExPO25 Barcelona
Tutorial on Network-medicine-based drug repurposing: on Drugst.One DREAM - Drug Repurposing through Expert Annotation and Modification Lisa Spindler BC2 2025 Basel
Deep Learning Models for Unbiased PPI prediction plateau at an accuracy of 0.65 - talk ISMB/ECCB 2025 Liverpool Judith Bernett ISMB/ECCB 2025 Liverpool
Pushing the Limits of Sequence-Based Protein-Protein Interaction Prediction Judith Bernett ISCBAcademy Webinar 2025
Tutorial on Network-medicine based drug repurposing: Nextflow pipeline for drug repurpsoing Markus List BC2 2025 Basel
Keynote: Investigating and Improving Tangram for Reliable Single-Cell to Spatial Mapping Markus List GMDS Workshop Computational Models in Biology and Medicine 2025 Braunschweig
Data leakage is a widespread issue in machine learning in the biomedical domain: How to spot it avoid it and fix it Markus List Seminar talk at the Department of Molecular Biology and the Digital Science Center - University of Innsbruck 2025
Data leakage is a widespread issue in machine learning in the biomedical domain: How to spot it avoid it and fix it Markus List Annual retreat of the Graduate School Quantitative and Molecular Biosciences Munich - Ludwig-Maximilian University Munich 2025
From Hype to Health Check: Critical Evaluation of Drug Response Prediction Models with DrEval Markus List RExPO25 Barcelona
Data leakage is a widespread issue in machine learning in the biomedical domain: How to spot it avoid it and fix it Markus List BayBioMS 10 Years Anniversary

Poster

Title Presenter Place
Systematic analysis of alternative splicing in time course data using Spycone Chit Tong Lio ECCB 2022 Sitges
Alternative splicing analysis benchmark with DICAST Alexander Dietrich ECCB 2022 Sitges
CYANUS - a web platform for analyzing drug response markers in cytometry data Quirin Manz RExPO22 Maastricht
IMNGS2: a web platform that puts the global amplicon wealth at the researcher’s fingertips for integrative microbiome studies Mohsen Pourjam ISME18 2022 & Seeon14 2022
Exploring the Diversity of Moraxellaceae Using the Taxonomy Informed Clustering (TIC) Algorithm Mohsen Pourjam Seeon15 2023 & Genetoberfest 2023 Munich
omnideconv: unifed transcriptomics deconvolution guided by single-cell atlases Alexander Dietrich SCOG Workshop ‘Single Cell Genomics meets Data Science’ & ISMB/ECCB 2023 Lyon
Cracking the black box of deep sequence-based protein-protein-interaction prediction Judith Bernett ISMB/ECCB 2023 Lyon & Genetoberfest 2023 Munich
Comparative analysis of single-cell RNA-seq protocols for transcript quantification Chit Tong Lio ISMB/ECCB 2023 Lyon & Genetoberfest 2023 Munich
A systematic comparison of novel and existing differential analysis methods for CyTOF data Quirin Manz ISMB/ECCB 2023 Lyon & Genetoberfest 2023 Munich
DysRegNet: Patient-specific and confounder-aware dysregulated network inference Johannes Kersting ISMB/ECCB 2023 Lyon & Genetoberfest 2023 Munich
Revisiting evidence for epigenetic control of alternative splicing Quirin Manz Functional Epigenomics Conference 2024 Saarbrücken & GCB 2024 Bielefeld & Weihenstephan Symposium 2025
A Nextflow pipeline for network-based disease module identification and validation Johannes Kersting RExPO24 München & Weihenstephan Symposium 2025
Omnideconv: Making second-generation methods for cell-type deconvolution available for everyone Konstantin Pelz GCB 2024 Bielefeld
PRONE - Systematic Evaluation of Normalization Approaches in Tandem Mass Tag and Label-Free Protein Quantification Data Lis Arend GCB 2024 Bielefeld & eMed Hamburg 2024
Benchmarking second-generation methods for cell-type deconvolution of transcriptomic data Alexander Dietrich GCB 2024 Bielefeld
SPONGEdb v2: Transcript-level ceRNA Networks Show the Patient-specific Impact of Alternative Splicing on miRNA Regulation in Cancer Lena Straßer GCB 2024 Bielefeld & MDSI Assembly 2024 & ISMB/ECCB 2025 Liverpool & Weihenstephan Symposium 2025
MSD - Microbial Signature Database: Store Mohsen Pourjam GCB 2024 Bielefeld
DyHealthNet: Context-Sensitive Analysis of Multi-Omics Cohort Data Lis Arend Weihenstephan Symposium 2025 & ISMB/ECCB 2025 Liverpool
CoSiNe: Enhancing interpretability of single-cell RNA-seq data through gene co-expression signed networks Luis Nagai ISMB/ECCB 2025
DIGGER 2.0: Digging Deeper into Differential Splicing Mechanisms of Human and Mouse Disorders Konstantin Pelz Weihenstephan Symposium 2025 & ISMB/ECCB 2025 Liverpool
DrEval Will See You Now: Consistent and Biologically Meaningful Evaluation of Cancer Drug Response Prediction Models Judith Bernett ISMB/ECCB 2025 Liverpool
Deep learning models for unbiased sequence-based PPI prediction plateau at an accuracy of 0.65 Judith Bernett Weihenstephan Symposium 2025
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