Publications

Latent Space Modelling of a Biomedical Multimodal Dataset

Fischer, D. J., Eckstein, M., Kist, A. M.

23rd IEEE International Symposium on Biomedical Imaging (ISBI 2026)

• DOI: 10.1109/isbi61048.2026.11515907

Adaptive Automatic Prompt Generation Assistant for Segmentation Foundation Models

Lurz, D., Neubig, L., Kist, A. M.

BVM Workshop, 259-266

Characterization of Foundation Models for Longitudinal Similarity Measurement in Medical Video Data

Neubig, L., Larsen, D., Ikuma, T., Kunduk, M., Kist, A. M.

BVM Workshop, 252-258

Foundation Models in Medical Image Segmentation: How Foundational Are Foundation Models Really?

Lurz, D., Neubig, L., Kopp, M., Kist, A. M.

BVM Workshop, 40-47 · Best Paper Award – 2nd place

Quantifying Anatomical Bias in Coronary Segmentation: Why Your Model Prefers the LCA More Than the RCA

Baumgart, S., Deubner, N., Kist, A. M.

BVM Workshop, 70-75 · Oral

Elevating AI on the Edge: A Demonstration of MIMaaS (Machine Intelligence with Microcontroller-as-a-Service)

Zimmermann, S., Groh, R., Kist, A. M.

Proceedings of the AAAI Conference on Artificial Intelligence, 40(48), 41751-41753

Measuring Neural Network Similarity

Kist, A. M.

F1000Research, 15, 430

From Prompts to Pipelines: Evaluating LLM-Generated Medical Image Segmentation Baselines

Arjomandi, J., Neubig, L., Mathis-Ullrich, F., Kist, A. M.

Machine Learning for Biomedical Imaging, 2026, 159-183 · MELBA–BVM 2025 Special Issue

Characterizing Sustained Phonation in Text-To-Speech Models

Daum, A., Goes, N., Kist, A. M.

Journal of Voice

• DOI: 10.1016/j.jvoice.2026.05.021

EdgeVolution: democratizing multi-objective neural architecture search and end-to-end deployment on microcontrollers

Groh, R., Dendorfer, S., Ávila Pava, M., Egle, F., Zimmermann, S., Kist, A. M.

Communications Engineering, 5(1), 113

• DOI: 10.1038/s44172-026-00708-2
• GitHub
• Documentation

BAGLS-VF: a comprehensive dataset for glottal area and vocal fold segmentations

Razi, S., Kist, A. M.

BMC Research Notes, 19(1), 329

EG-ENAS: Efficient and Generalizable Evolutionary Neural Architecture Search for Image Classification

Pava, M. A., Groh, R., Kist, A. M.

AutoML 2025 Methods Track

• Article
• GitHub

Have We Solved Glottis Segmentation? Review and Commentary

Kist, A. M., Döllinger, M.

Journal of Voice, 39(3), 574-576

• Article

LLM-driven Baselines for Medical Image Segmentation: A Systematic Analysis

Arjomandi, J., Neubig, L., Kist, A. M.

BVM Workshop, 50-56 · Best Presentation Award / Oral

Prediction of phenotypes by secretory biomarkers and machine learning in patients with chronic rhinosinusitis

Becker, M., Kist, A. M., Wendler, O., Pesold, V. V., Bleier, B. S., Mueller, S. K.

European Review for Medical and Pharmacological Sciences, 29(1), 1-11

Unstructured electronic health records of dysphagic patients analyzed by large language models

Neubig, L., Larsen, D., Kunduk, M., Kist, A. M.

IEEE Journal of Translational Engineering in Health and Medicine, 13, 237-245

Predicting semantic segmentation quality in laryngeal endoscopy images

Kist, A. M., Razi, S., Groh, R., Gritsch, F., Schützenberger, A.

PloS ONE, 20(7), e0314573

EvoVis: Dashboard for Visualizing Evolutionary Neural Architecture Search Algorithms

Dang, L., Groh, R., Kist, A. M.

Journal of Open Source Software, 10(111), 7728

• DOI: 10.21105/joss.07728
• GitHub

Markerless Tracking-Based Registration for Medical Image Motion Correction

Neubig, L., Larsen, D., Ikuma, T., Kopp, M., Kunduk, M., Kist, A. M.

International Workshop on Reconstruction and Imaging Motion Estimation, 34-43

A multimodal dataset for precision oncology in head and neck cancer author list incomplete

Dörrich, M., Balk, M., Heusinger, T., Beyer, S., Mirbagheri, H., Fischer, D. J., …, Kist, A. M.

Nature Communications, 16(1), 7163

• DOI: 10.1038/s41467-025-62386-6
• Project

Implicit neural representations for laryngeal aerodynamics

Hauser, S. L., Kist, A. M., Döllinger, M., Kniesburges, S.

Physics of Fluids, 37(8)

An mHealth App and System Architecture for Respiratory Disease Management: Design Principles, Tool Development, and Pilot Usability Study

Chao, A., Martignetti, L., Groh, R., Kist, A. M., Li-Jessen, N. Y.

JMIR Formative Research, 9, e73584

Population-based guiding for evolutionary neural architecture search

Dendorfer, S., Kist, A. M.

Scientific Reports, 15(1), 38996

The modified Polsby–Popper score, a novel quantitative histomorphological biomarker and its potential to predict lymph node positivity and cancer-specific survival in oral tongue squamous cell carcinoma author list incomplete

Csűry, T. D., Csűry, A. Z., Balk, M., Kist, A. M., Rupp, R., Mueller, S. K., …, Gostian, A. O.

Cancer Medicine, 13(1), e6824

A Generative Method for a Laryngeal Biosignal in press

Darvish, M., Kist, A. M.

Journal of Voice · in press

• Article

DeepD3, an open framework for automated quantification of dendritic spines

Fernholz, M. H., Guggiana Nilo, D. A., Bonhoeffer, T., Kist, A. M.

PLOS Computational Biology, 20(2), e1011774

• DOI: 10.1371/journal.pcbi.1011774
• GitHub
• Data
• Project

Machine Learning-assisted immunophenotyping of peripheral blood identifies innate immune cells as best predictor of response to induction chemo-immunotherapy in head and neck squamous cell carcinoma – knowledge obtained from the CheckRad-CD8 trial author list incomplete

Hecht, M., Frey, B., Gaipl, U. S., Tianyu, X., Eckstein, M., Donaubauer, A. J., …, Kist, A. M.

Neoplasia, 49, 100953

Implicit neural representations in light microscopy

Hauser, S. L., Brosig, J., Murthy, B., Attardo, A., Kist, A. M.

Biomedical Optics Express, 15(4), 2175-2186

• Article

SpokeN-100: A Cross-Lingual Benchmarking Dataset for The Classification of Spoken Numbers in Different Languages

Groh, R., Goes, N., Kist, A. M.

TinyML Research Symposium · Full Paper

• GitHub
• Data

Sequence Alignment-based Similarity Metric in Evolutionary Neural Architecture Search

Pava, M. A., Groh, R., Kist, A. M.

Proceedings of the Third International Conference on Automated Machine Learning (AutoML 2024), PMLR 256:8/1-21

• Article
• GitHub

Neural Radiance Fields for 3D Reconstruction in Monoscopic Laryngeal Endoscopy

Rodríguez, B. L., Borges, G. L., García, M. L. B., Schützenberger, A., Kist, A. M.

2024 IEEE International Symposium on Biomedical Imaging (ISBI) · Contributed equally; publication from the BIMAP seminar

• DOI: 10.1109/isbi56570.2024.10635332
• PDF (avoid the paywall)

Beyond the Threshold: Time Is All You Need

Dendorfer, S., Kist, A. M.

AutoML Conference 2024 (Workshop Track)

• Article
• PDF
• GitHub
• Video

ANNOTE: Annotation of time-series events

Groh, R., Li, J. Y., Li-Jessen, N. Y., Kist, A. M.

Software Impacts, 21, 100679

• Article
• GitHub

GlottisNetV2: Temporal Glottal Midline Detection Using Deep Convolutional Neural Networks

Kruse, E., Döllinger, M., Schützenberger, A., Kist, A. M.

IEEE Journal of Translational Engineering in Health and Medicine, 11, 137-144

• Article
• GitHub

Pixel-Based Swallow Measurements: Correcting Nonsquare Pixels

Larsen, D., Ikuma, T., Neubig, L., Kist, A. M., Leonard, R., McWhorter, A. J., Kunduk, M.

Journal of Speech, Language, and Hearing Research, 66(2), 565-572

Compact Convolutional Transformers on Edge TPUs

Sun, Y., Kist, A. M.

BVM Workshop, 141-146

Dataset Pruning using Evolutionary Optimization

Neubig, L., Kist, A. M.

BVM Workshop, 134-139

• DOI: 10.1007/978-3-658-41657-7_30

Impact of Mixed Precision Techniques on Training and Inference Efficiency of Deep Neural Networks

Dörrich, M., Fan, M., Kist, A. M.

IEEE Access, 11, 57627-57634

• DOI: 10.1109/access.2023.3284388

End-to-end evolutionary neural architecture search for microcontroller units

Groh, R., Kist, A. M.

2023 IEEE International Conference on Omni-layer Intelligent Systems (COINS), 1-7

• DOI: 10.1109/coins57856.2023.10189194

Evolutionary normalization optimization boosts semantic segmentation network performance accepted

Neubig, L., Kist, A. M.

Medical Image Computing and Computer Assisted Intervention – MICCAI 2023 · Accepted (full paper)

• DOI: 10.1007/978-3-031-43901-8_67
• GitHub

Towards image-based laryngeal videostroboscopy using deep learning-enabled compressed sensing

Wölfl, A. M., Schützenberger, A., Breininger, K., Kist, A. M.

Biomedical Signal Processing and Control, 86, 105335

Künstliche Intelligenz in der laryngealen Endoskopie

Kist, A. M.

Sprache · Stimme · Gehör, 47(03), 134-138

Explainable convolutional neural networks for assessing head and neck cancer histopathology author list incomplete

Dörrich, M., Hecht, M., Fietkau, R., Hartmann, A., Iro, H., Gostian, A. O., …, Kist, A. M.

Diagnostic Pathology, 18(1), 121

• Article

Wearable Prophylaxis Tool for AI-Driven Identification of Early Warning Patterns of Pressure Ulcers author list incomplete

Gruenerbel, L., Heinrich, F., Böhlhoff-Martin, J., Röper, L., Machens, H. G., Gruenerbel, A., …, Kist, A. M., …, Steinbacher, L.

Bioengineering, 10(10), 1125

Neuromatch Academy: a 3-week, online summer school in computational neuroscience author list incomplete

t Hart, B., Achakulvisut, T., Adeyemi, A., Akrami, A., Alicea, B., Alonso-Andres, A., …, Kist, A. M., …, Gal, V.

Journal of Open Source Education, 5(49), 118

Efficient Patient Orientation Detection in Videofluoroscopy Swallowing Studies

Neubig, L., Groh, R., Kunduk, M., Larsen, D., Leonard, R., Kist, A. M.

Bildverarbeitung für die Medizin 2022, 129-134

Efficient and Explainable Deep Neural Networks for Airway Symptom Detection in Support of Wearable Health Technology

Groh, R., Lei, Z., Martignetti, L., Li-Jessen, N. Y., Kist, A. M.

Advanced Intelligent Systems, 4(7), 2100284

• Article
• GitHub

A single latent channel is sufficient for biomedical glottis segmentation

Kist, A. M., Breininger, K., Dörrich, M., Dürr, S., Schützenberger, A., Semmler, M.

Scientific Reports, 12(1), 14292

• DOI: 10.1038/s41598-022-17764-1
• GitHub
• Data

Teaching AI Competencies in Engineering using Projects and Open Educational Resources

Schleiss, J., Hense, J., Kist, A. M., Schlingensiepen, J., Stober, S.

Proceedings of the 50th European Society for Engineering Education (SEFI) Annual Conference

Effects of surgical masks on aerosol dispersion in professional singing

Kniesburges, S., Schlegel, P., Peters, G., Westphalen, C., Jakubaß, B., Veltrup, R., Kist, A. M., Döllinger, M., Gantner, S., Kuranova, L., Benthaus, T.

Journal of Exposure Science & Environmental Epidemiology, 32(5), 727-734

Die Tracking Olympiad – Forschendes Lernen durch kooperative und kompetitive Praxisprojekte

Kist, A. M.

Hochschullehre zu Künstlicher Intelligenz, 44

Long-term performance assessment of fully automatic biomedical glottis segmentation at the point of care

Groh, R., Dürr, S., Schützenberger, A., Semmler, M., Kist, A. M.

PloS one, 17(9), e0266989

Efficient biomedical image segmentation on Edge TPUs

Kist, A. M., Döllinger, M.

Medical Imaging with Deep Learning (MIDL) · Accepted as short paper

• Article

Interdependencies between acoustic and high-speed videoendoscopy parameters

Schlegel, P., Kist, A. M., Kunduk, M., Dürr, S., Döllinger, M., Schützenberger, A.

Plos one, 16(2), e0246136

A Deep Learning Enhanced Novel Software Tool for Laryngeal Dynamics Analysis

Kist, A. M., Gómez, P., Dubrovskiy, D., Schlegel, P., Kunduk, M., Echternach, M., Patel, R., Semmler, M., Bohr, C., Dürr, S., Schützenberger, A., Döllinger, M.

Journal of Speech, Language, and Hearing Research, 64(6), 1889-1903

• Article

OpenHSV: An open platform for laryngeal high-speed videoendoscopy

Kist, A. M., Dürr, S., Schützenberger, A., Döllinger, M.

Scientific Reports, 11(1), 13760

• DOI: 10.1038/s41598-021-93149-0
• GitHub
• Docs
• Award

Deep Learning on Edge TPUs preprint

Sun, Y., Kist, A. M.

arXiv

Feature-based image registration in structured light endoscopy

Kist, A. M., Zilker, J., Döllinger, M., Semmler, M.

Medical Imaging with Deep Learning (MIDL), 369-383 · Accepted as full paper

• Article
• GitHub

A cerebellar internal model calibrates a feedback controller involved in sensorimotor control

Markov, D. A., Petrucco, L., Kist, A. M., Portugues, R.

Nature Communications, 12(1), 6694

Determination of clinical parameters sensitive to functional voice disorders applying boosted decision stumps

Schlegel, P., Kist, A. M., Semmler, M., Döllinger, M., Kunduk, M., Dürr, S., Schützenberger, A.

IEEE Journal of Translational Engineering in Health and Medicine, 8, 1-11

BAGLS, a multihospital benchmark for automatic glottis segmentation author list incomplete

Gómez, P., Kist, A. M., Schlegel, P., Berry, D. A., Chhetri, D. K., Dürr, S., …, Döllinger, M.

Scientific Data, 7(1), 186 · Contributed equally

• DOI: 10.1038/s41597-020-0526-3
• GitHub
• Data

Efficient Biomedical Image Segmentation on EdgeTPUs at Point of Care

Kist, A. M., Döllinger, M.

IEEE Access, 8, 139356-139366

• Article

Rethinking glottal midline detection

Kist, A. M., Zilker, J., Gómez, P., Schützenberger, A., Döllinger, M.

Scientific Reports, 10(1), 20723

• DOI: 10.1038/s41598-020-77216-6
• GitHub

Light-sheet imaging and graph analysis of antidepressant action in the larval zebrafish brain network preprint author list incomplete

Burgstaller, J., Hindinger, E., Donovan, J., Dal Maschio, M., Kist, A. M., Gesierich, B., …, Baier, H.

bioRxiv, 618843

Motor context dominates output from Purkinje cell functional regions during reflexive visuomotor behaviours

Knogler, L. D., Kist, A. M., Portugues, R.

eLife, 8, e42138

Stytra: An open-source, integrated system for stimulation, tracking and closed-loop behavioral experiments

Štih, V., Petrucco, L., Kist, A. M., Portugues, R.

PLoS Computational Biology, 15(4), e1006699

Optomotor swimming in larval zebrafish is driven by global whole-field visual motion and local light-dark transitions

Kist, A. M., Portugues, R.

Cell Reports, 29(3), 659-670

• Article

Disulfide Mapping Planner Software Tool

Kist, A. M., Lampert, A., O'Reilly, A. O.

Journal of Computational Biology, 25(4), 430-434

Imaging-based screening platform assists protein engineering

Fabritius, A., Ng, D., Kist, A. M., Erdogan, M., Portugues, R., Griesbeck, O.

Cell Chemical Biology, 25(12), 1554-1561

Whole-brain imaging using genetically encoded activity sensors in vertebrates

Kist, A. M., Knogler, L. D., Markov, D. A., Yildizoglu, T., Portugues, R.

Decoding Neural Circuit Structure and Function: Cellular Dissection Using Genetic Model Organisms, 321-341

SCN10A mutation in a patient with erythromelalgia enhances C-fiber activity dependent slowing author list incomplete

Kist, A. M., Sagafos, D., Rush, A. M., Neacsu, C., Eberhardt, E., Schmidt, R., …, Namer, B.

PLoS One, 11(9), e0161789

Pattern of functional TTX-resistant sodium channels reveals a developmental stage of human iPSC- and ESC-derived nociceptors author list incomplete

Eberhardt, E., Havlicek, S., Schmidt, D., Link, A. S., Neacsu, C., Kohl, Z., …, Kist, A. M., …, Lampert, A.

Stem Cell Reports, 5(3), 305-313

Inherited pain: sodium channel Nav1.7 A1632T mutation causes erythromelalgia due to a shift of fast inactivation author list incomplete

Eberhardt, M., Nakajima, J., Klinger, A. B., Neacsu, C., Hühne, K., O'Reilly, A. O., Kist, A. M., …, Lampert, A.

Journal of Biological Chemistry, 289(4), 1971-1980