Nils Porsche — DeepMicroscopy

Hello,
I am a AI researcher at Flensburg University of Applied Sciences where I contribute to the CLE project; an optical Biopsy of Sinonasal Tumors using Confocal Laser Endomicroscopy. The project focuses on:
– Automatic detection of malignancy in CLE images
– Optimization of clinical evaluation parameters
– Virtual CLE-assisted endoscopy

My research interests include self-supervised learning and few-shot learning. I am particularly focused on how machine learning models can acquire robust and transferable representations from limited or unlabeled data, enabling generalization in low-data regimes.

I also investigate related fields such as foundation models and Low-Rank Adaptation (LoRA), with a particular focus on building scalable and data-efficient AI systems.

Publications

2026

Benchmarking Deep Learning and Vision Foundation Models for Atypical vs. Normal Mitosis Classification with Cross-Dataset Evaluation

Sweta Banerjee, Viktoria Weiss, Taryn A. Donovan, Rutger H. J. Fick, Thomas Conrad, Jonas Ammeling, Nils Porsche, Robert Klopfleisch, Christopher Kaltenecker, Katharina Breininger, Marc Aubreville and Christof A Bertram

Machine Learning for Biomedical Imaging doi
Beyond Classification: Pathology Foundation Models as Detection Encoders for Mitotic Figures

Sweta Banerjee, Alireza Teimoury, Nils Porsche, Alexandra K Stoll, Viktoria Weiss, Niklas Hargarter, Jonas Ammeling, Thomas Conrad, Christoph Stroblberger, Christopher Kaltnecker, Robert Klopfleisch, Christof A Bertram, Katharina Breininger and Marc Aubreville

MICCAI Workshop on Computational Pathology with Multimodal Data (COMPAYL)
Enabling Fast and Mobile Histopathology Image Annotation through Swipeable Interfaces SWAN

Sweta Banerjee, Timo Gosch, Sara Hester, Viktoria Weiss, Thomas Conrad, Taryn A. Donovan, Nils Porsche, Jonas Ammeling, Christoph Stroblberger, Robert Klopfleisch, Christopher Kaltenecker, Christof A. Bertram, Katharina Breininger and Marc Aubreville

Bildverarbeitung für die Medizin 2026 doi link
Feasibility of confocal laser endomicroscopy as an optical biopsy method for SCC on the auricle : an exploratory study

Flurin Müller-Diesing, Matti Sievert, Bharat Akhanda Panuganti, Marc Aubreville, Nils Porsche, Stephan Hackenberg, Manuel Stöth, Agmal Scherzad, Jasper Meyer, Markus Wirth and Miguel Goncalves

Oral and Maxillofacial Surgery doi link
Filtering Scheme for Confocal Laser Endomicroscopy (CLE)-video Sequences for Self-supervised Learning

Nils Porsche, Flurin Müller-Diesing, Sweta Banerjee, Miguel Goncalves and Marc Aubreville

Bildverarbeitung für die Medizin 2026 doi link
Investigation of Factors Contributing to Domain Generalization in Single-Shot Autofocus

Niklas Hargarter, Jonas Ammeling, Nils Porsche, Sweta Banerjee, F Maria Schabel, Christof A Bertram, Annina Neumann and Marc Aubreville

MICCAI Workshop on Computational Pathology with Multimodal Data (COMPAYL) link
Optical biopsy of nasal cavity cancer with confocal laser endomicroscopy – a pilot study

Flurin Müller-Diesing, Matti Sievert, Bharat Akhanda Panuganti, Marc Aubreville, Nils Porsche, Stephan Hackenberg, Manuel Stöth, Agmal Scherzad, Markus Wirth, Philipp Winnand and Miguel Goncalves

European Archives of Oto-Rhino-Laryngology doi link
Reporting Transparency in Veterinary Pathology Deep Learning: A Systematic Review of Reproducibility-Critical Details

Sweta Banerjee, Christof A. Bertram, Viktoria Weiss, Jonas Ammeling, Thomas Conrad, Nils Porsche, Robert Klopfleisch, Christoph Stoblberger, Christopher Kaltenecker, Katharina Breininger and Marc Aubreville

Veterinary Pathology doi
RetroScope: An Open Framework for Motorizing and Digitizing Vintage Microscopes

Marvin Carstensen, Nils Porsche, Justin Carstensen, Niklas Hargarter, Simon Olberding and Marc Aubreville

MICCAI Workshop on Computational Pathology with Multimodal Data (COMPAYL) link