• Genome Data Science

    We develop methods and tools to work with tens of thousands of genomes and analyze and integrate the corresponding data.

    Model of DNA double helix in front of a student.
    © Universität Bielefeld
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392232 Advanced Artificial Intelligence in Biomedicine


392232 Schönhuth/Schlüter Winter 2025 Thu 12-14 in Y-1-202 (S) and Thu 10-12 in U2-200 (Ü)

Contact

Structure

  • Individual presentations (S): present contents of chosen scientific paper for 30 minutes, followed by 15 minutes for discussion
  • Technical report (S): 10-12 pages long
  • Paper journal (Ü): collection of summaries of at least half of the presentations; each summary should be at least 300 words

Papers

Please, see on Google Drive. The file is password protected.
If there is any problem with accessing a paper, write an email to Luna Pianesi.

Introduction



introduction-161025.pdf

How to present



howtopresent.pdf

How to write reports



howtowritereports.pdf

Timetable seminar sessions

Date Topic
16.10.2025 Introduction, How to present
23.10.2025 -
30.10.2025 -
06.11.2025 -
13.11.2025 -
20.11.2025 How to write reports, Presentations start
Presentation: Gregor Foitzik. “Protein Structure Generation Via Folding Diffusion”
27.11.2025 Presentation: Sanket Veerkar. “Antigen-Specific Antibody Design and Optimization with Diffusion-Based Generative Models for Protein Structures”
Presentation: Özay Öztürk. “Mamba: Linear-time Sequence Modelling with Selective State Spaces”
04.12.2025 Presentation: Karthikeya Barla. “Quantum Mixed-State Self-Attention Network”
Presentation: Christopher Gerz. “Protein Docking Model Evaluation by Graph Neural Networks”
11.12.2025 Presentation: Jonas Ginster. “Machine learning and AI-based approaches for bioactive ligand discovery and GPCR-ligand recognition”
Presentation: Dustin Schulz. “Using GNN property predictors as molecule generators”
18.12.2025 Presentation: Dana Meyer. “Multiscale transformers and multi-attention mechanism networks for pathological nuclei segmentation”
Presentation: Felix Duldinger. “Context-aware geometric deep learning for protein sequence design”
25.12.2025 Holidays
01.01.2026 Holidays
08.01.2026 Presentation: Lokesh Mangamuri. “Combining Graph Attention and Recurrent Neural Networks in a Variational Autoencoder for Molecular Representation Learning and Drug Design”
Presentation: Genna Strathmann. “MEGANet: Multi-scale Edge-Guided Attention Network for Weak Boundary Polyp Segmentation”
15.01.2026 Presentation: Anjali Anjali. “Biomedical literature mining: graph kernel-based learning for gene–gene interaction extraction”
Presentation: Mathis Wülpern. “Hypergraph Factorization for Multi-tissue Gene Expression Imputation”
22.01.2026 Presentation: Abdulrahman Alzahabi. “DrugDAGT: a Dual-Attention Graph Transformer for Drug-Drug Interaction Prediction”
Presentation: Abu Emran Emon. “Graph-to-Sequence Retrosynthesis”
29.01.2026 Presentation: Jefferson Vormann. “gRNAde: Geometric Deep Learning for 3D RNA Inverse Design”
Presentation: Michael Bucks. “Molecule Edit Graph Attention Network: Modelling Chemical Reactions as Sequences of Graph Edits”
05.02.2026 Presentation: Aya Benzine. “Contextual AI Models for Single-cell Protein Biology”
Presentation: Ergys Kosita. “Prospective De Novo Drug Design with Deep Interactome Learning”
12.02.2026 Presentation: Kareem Elbanna. “TAnet: A New Temporal Attention Network for EEG-based Auditory Spatial Attention Decoding with a Short Decision Window”
Presentation: Khaled Saber. “EquiBind: Geometric Deep Learning for Drug Binding Structure Prediction”
Presentation: Shambavi Arcot Velumani. “On the Scalability of GNNs for Molecular Graphs”