Conference and Journal Publications

• spora: A Unified Multimodal Dataset for Spatial Proteomics
  Benedikt von Querfurth*, Eeshaan Jain*, Johann Wenckstern*, Lukas Klein*, Yexiang Cheng, Phil Cheng, Cédric Vincent-Cuaz, Pascal Frossard, Martina Haberecker, Andreas Wicki, Charlotte Bunne
  NeurIPS 2026 · Access spora
• Explainable AI-based analysis of human pancreas sections identifies traits of type 2 diabetes
  Lukas Klein*, Sebastian Ziegler*, Yanni Morgenroth*, [...], Eyke Schoeniger, Michele Solimena, Felicia Gerst, Robert Wagner, Fabian Isensee, Klaus Maier-Hein, Paul Jäger
  Nature Communications · NeurIPS 2024 IAI Workshop · Covered by GEN · Download the DIADEM Dataset
• nnActive: A Framework for Evaluation of Active Learning in 3D Biomedical Segmentation
  Carsten T. Lüth*, Jeremias Traub*, Kim-Celine Kahl, Till J. Bungert, Lukas Klein, Lars Krämer, Paul F. Jaeger, Fabian Isensee, Klaus Maier-Hein
  Transactions on Machine Learning Research (TMLR)
• Finally Beating the Random Baseline: A Simple and Effective Active Learning Method for 3D Biomedical Segmentation
  Carsten T. Lüth*, Jeremias Traub*, Kim-Celine Kahl, Till J. Bungert, Lukas Klein, Lars Krämer, Paul F. Jaeger, Klaus Maier-Hein, Fabian Isensee
  Transactions on Machine Learning Research (TMLR)
• Navigating the Maze of Explainable AI: A Systematic Approach to Evaluating Methods and Metrics
  Lukas Klein, Carsten Lüth, Udo Schlegel, Till Bungert, Mennatallah El-Assady, Paul Jäger
  NeurIPS 2024
• Enhancing predictive imaging biomarker discovery through treatment effect analysis
  Shuhan Xiao, Lukas Klein, Paul Jäger, Jens Petersen, Klaus Maier-Hein
  WACV 2025
• Discovering Process Dynamic for Scalable Perovskite Solar Cell Manufacturing with Explainable AI
  Lukas Klein*, Sebastian Ziegler*, Felix Laufer*, Charlotte Debus, Markus Götz, Klaus Maier-Hein, Ulrich W. Paetzold, Fabian Isensee, Paul Jäger
  Advanced Materials · Covered by The Independent · NeurIPS 2023 XAI in Action Workshop (Top Paper Award)
• Navigating the Pitfalls of Active Learning Evaluation: A Systematic Framework for Meaningful Performance Assessment
  Carsten T. Lüth, Till J. Bungert, Lukas Klein, Paul Jäger
  NeurIPS 2023
• Semi-supervised automated Gleason Grading on WSI
  Maximilian Fischer*, Lars Krämer*, Sebastian Ziegler*, Lukas Klein*, Paul Jäger, Marco Nolden, Peter Neher, Fabian Isensee, Klaus Maier-Hein
  ECDP 2024 (Oral)
• A Call to Reflect on Evaluation Practices for Failure Detection in Image Classification
  Paul Jäger, Carsten T. Lüth, Lukas Klein, Till J. Bungert
  ICLR 2023 (Oral, Top 1% Paper)
• Improving Explainability of Disentangled Representations using Multipath-Attribution Mappings
  Lukas Klein, João Carvalho, Mennatallah El-Assady, Paolo Penna, Joachim M. Buhmann, Paul Jäger
  MIDL 2022

Preprints and Under Review

• Single-Cell Co-Expression NEtworks reveal Actionable Resistance Mechanisms to Targeted and Immunotherapy Treatments in BRAF-mutated Melanoma
  Eva Camarillo-Retamosa, Lars Bosshard, Parisa Rahimzadeh, Benedict Gosztonyi, Lukas Klein, [...], Michael Prummer, Andreas Wicki
  Cell Reports (under review)
• Clinical Robustness: Rethinking Foundation Models for Diagnostic Gleason Grading
  Xinmi Huo, Eric Monzon, Kokhaur Ong, [...], Lukas Klein, [...], Dalong Cao, Li Liu, Huakang Tu, Soo Yong Tan, Huanfen Zhao
  Medical Image Analysis (MIA) (under review)
• Foundation Model-based Simulation of Spatiotemporal Tissue Responses to Therapy
  Amine Maazizi*, Lukas Klein*, Benedikt von Querfurth*, Johann Wenckstern, Justine Epiney, Anne Cairoli, Albert Santamaria-Martínez, Elisa Oricchio, Charlotte Bunne
  Under submission
• Interactive Semantic Interventions for VLMs: Breaking VLMs with Human Ingenuity
  Lukas Klein*, Kenza Amara*, Carsten Lüth, Antonio Rodríguez, Hendrik Strobelt, Mennatallah El-Assady, Paul Jäger
  NeurIPS 2024 Safe Generative AI Workshop · Causality & Large Models Workshop
• From Correlation to Causation: Formalizing Interpretable Machine Learning as a Statistical Process
  Lukas Klein, Mennatallah El-Assady, Paul Jäger
  IJCAI 2022 Workshop on XAI