Research Foci
- Biomedical Imaging
- Robust Uncertainty Estimation
CV
Academic Education
- Promotionsstudium, Medical Machine Learning Lab (Prof. Tim Hahn)
- Master of Science (Informatik), Universität Münster
- Bachelor of Science (Informatik), Universität Münster
Prizes
- Promotionspreis – Medizinische Fakultät der Universität Münster
- Paper of the Month – Medizinische Fakultät der Universität Münster
- Forschungsförderpreis – Maria-Möller-Stiftung
Publications
- Konowski, Maximilian, Kraus, Anna, Goltermann, Janik, Ernsting, Jan, Mahjoory, Keyvan, Fisch, Lukas, Spanagel, Jennifer, Wellms, Sarah, Bedir, Dunya, Altegoer, Luisa, Borgers, Tiana, Teckentrup, Sabrina, Papenbrock, Sara, Hildebrand, Sophie Anne, Ratnalingam, Elilarasi, Meisenzahl, Eva, Herrmann, Franziska, Meinert, Susanne, Leehr, Johanna Elisabeth, Hubbert, Julia, Krieger, Judith, Meinert, Hannah, Slump, Theresa, Nenadic, Igor, Jansen, Andreas, Javaheripour, Nooshin, Thomas-Odenthal, Florian, Jamalabadai, Hamidreza, Straube, Benjamin, Hermesdorf, Marco, Richter, Maike, Helbok, Raimund, Jiang, Xiaoyi, Opel, Nils, Berger, Klaus, Kircher, Tilo, Dannlowski, Udo, Hahn, Tim, Winter, Ralf Nils, and Leenings, Ramona. . “The timeline of brain aging in major depression: A prospective study from before first-onset to established illness.” Preprint. medRxiv doi: 10.64898/2026.08.29.26361710.
- Fisch, L, Winter, NR, Goltermann, J, Barkhau, C, Emden, D, Ernsting, J, Konowski, M, Leenings, R, Borgers, T, Flinkenflügel, K, Grotegerd, D, Kraus, A, Leehr, EJ, Meinert, S, Stein, F, Teutenberg, L, Thomas-Odenthal, F, Usemann, P, Hermesdorf, M, Jamalabadi, H, Jansen, A, Nenadić, I, Straube, B, Kircher, T, Berger, K, Risse, B, Dannlowski, U, and Hahn, T. . “deepmriprep: voxel-based morphometry preprocessing via deep neural networks.” Preprint. Nature Computational Science: 1–10.
- Förster, Katharina, Winter, R.Nils, Ernsting, Jan, Leenings, Ramona, Fisch, Lukas, Barkhau, Carlotta, Konowski, Maximilian, Emden, Daniel, Kraus, Anna, Dohm, Katharina, Berger, Klaus, Arolt, Volker, Carballedo, Angela, Lisiecka, Danutia, Frodl, Thomas, Kanske, Philipp, Dannlowski, Udo, Hahn, Tim, and Grotegerd, Dominik. . “MRI-derived estimation of biological aging in patients with affective disorders in a 9-year follow-up - a prospective marker of future recurrence.” Molecular Psychiatry 31 (5): 2652–2659. doi: 10.1038/s41380-025-03382-6.
- Goya-Maldonado, Roberto, Erwin-Grabner, Tracy, Zeng, Ling-Li, Ching, Christopher R. K., Aleman, Andre, Amod, Alyssa R., Basgoze, Zeynep, Benedetti, Francesco, Besteher, Bianca, Brosch, Katharina, Bülow, Robin, Colle, Romain, Connolly, Colm G., Corruble, Emmanuelle, Couvy-Duchesne, Baptiste, Cullen, Kathryn, Dannlowski, Udo, Davey, Christopher G., Dols, Annemiek, Ernsting, Jan, Evans, Jennifer W., Fisch, Lukas, Fuentes-Claramonte, Paola, Gonul, Ali Saffet, Gotlib, Ian H., Grabe, Hans J., Groenewold, Nynke A., Grotegerd, Dominik, Hahn, Tim, Hamilton, J.Paul, Han, Laura K. M., Harrison, Ben J., Ho, Tiffany C., Jahanshad, Neda, Jamieson, Alec J., Karuk, Andriana, Kircher, Tilo, Klimes-Dougan, Bonnie, Koopowitz, Sheri-Michelle, Lancaster, Thomas, Leenings, Ramona, Li, Meng, Linden, David E. J., MacMaster, Frank P., Mehler, David M. A., Meinert, Susanne, Melloni, Elisa, Mueller, Bryon A., Mwangi, Benson, Nenadić, Igor, Ojha, Amar, Okamoto, Yasumasa, Oudega, Mardien L., Penninx, Brenda W. J. H., Poletti, Sara, Pomarol-Clotet, Edith, Portella, Maria J., Radua, Joaquim, Rodríguez-Cano, Elena, Sacchet, Matthew D., Salvador, Raymond, Schrantee, Anouk, Sim, Kang, Soares, Jair C., Solanes, Aleix, Stein, Dan J., Stein, Frederike, Stolicyn, Aleks, Thomopoulos, Sophia I., Toenders, Yara J., Uyar-Demir, Aslihan, Vieta, Eduard, Vives-Gilabert, Yolanda, Völzke, Henry, Walter, Martin, Whalley, Heather C., Whittle, Sarah, Winter, Nils, Wittfeld, Katharina, Wright, Margaret J., Wu, Mon-Ju, Yang, Tony T., Zarate, Carlos, Veltman, Dick J., Schmaal, Lianne, and Thompson, Paul M. . “Classification of major depressive disorder using vertex-wise brain sulcal depth, curvature, and thickness with a deep and a shallow learning model.” Molecular Psychiatry 31 (3). doi: 10.1038/S41380-025-03273-W.
- Schnorrenberg, Jan, Ernsting, Jan, Küllenberg, Enrico, Hahn, Tim, Risse, Benjamin, and Thomas, Christian. . “Seeing Beyond the Lesion: Disease Recognition from Reactive CNS Tissue.” Preprint. arXiv doi: https://doi.org/10.48550/arXiv.2609.02390.
- Ernsting, Jan, Kordes, Gunnar Paul, Johannaber, Nils, Ogoniak, Lynn, Roll, Wolfgang, Hahn, Tim, Busch, Alexander Siegfried, and Risse, Benjamin. . “Population-Scale Segmentation of Penile Tissue in DIXON MRI using Deep Learning for Quantitative Phenotyping in Male Reproductive Health.” Preprint. arXiv doi: 10.48550/arXiv.2607.02127.
- Porschen, Christian, Ernsting, Jan, Brauckmann, Paul, Weiss, Raphael, Würdemann, Till, Booke, Hendrik, Amini, Wida, Maidowski, Ludwig, Risse, Benjamin, Hahn, Tim, and von Groote, Thilo. . “pyAKI—An open source solution to automated acute kidney injury classification.” PloS one 20 (1) e0315325.
- Ernsting, J, Beeken, PN, Ogoniak, L, Kockwelp, J, Roll, W, Hahn, T, Busch, AS, and Risse, B. . “Towards population scale testis volume segmentation in DIXON MRI.” Computers in Biology and Medicine 198: 111139–111139. doi: 10.1016/j.compbiomed.2025.111139.
- Barkhau, Carlotta C. B., Pellengahr, Clemens, Wang, Zheng, Fisch, Lukas, Leenings, Ramona, Winter, Nils R., Ernsting, Jan, Konowski, Maximilian, Grotegerd, Dominik, Meinert, Susanne, Hubbert, Julia M., Krieger, Judith, Borgers, Tiana, Flinkenflügel, Kira, Leehr, Elisabeth J., Stein, Frederike, Thomas‐Odenthal, Florian, Usemann, Paula, Teutenberg, Lea, Nenadic, Igor, Straube, Benjamin, Alexander, Nina, Jansen, Andreas, Porschen, Christian, Kircher, Tilo, Griffiths, John D., Jamalabadi, Hamidreza, Dannlowski, Udo, and Hahn, Tim. . “Toward Personalized Neuroscience: Evaluating Individual‐Level Information in Neural Mass Models.” Human Brain Mapping 46 (16) e70413. doi: 10.1002/hbm.70413.
- Edwin Thanarajah, Sharmili, Ribeiro, AdèleH., Lee, Jaehyun, Winter, NilsR., Stein, Frederike, Lippert, RachelN., Hanssen, Ruth, Schiweck, Carmen, Fehse, Leon, Bloemendaal, Mirjam, Aichholzer, Mareike, Bouzouina, Aicha, Uckermark, Carmen, Welzel, Marius, Repple, Jonathan, Matura, Silke, Meinert, Susanne, Bang, Corinna, Franke, Andre, Leenings, Ramona, Konowski, Maximilian, Ernsting, Jan, Fisch, Lukas, Barkhau, Carlotta, Thomas-Odenthal, Florian, Usemann, Paula, Teutenberg, Lea, Straube, Benjamin, Alexander, Nina, Jamalabadi, Hamidreza, Nenadić, Igor, Lügering, Andreas, Nitsch, Robert, Kittel-Schneider, Sarah, Cryan, JohnF., Reif, Andreas, Kircher, Tilo, Heider, Dominik, Dannlowski, Udo, and Hahn, Tim. . “Soft Drink Consumption and Depression Mediated by Gut Microbiome Alterations.” JAMA Psychiatry 82 (11): 1095–1102. doi: 10.1001/jamapsychiatry.2025.2579.
- Hermesdorf, Marco, Homann, Jan, Ernsting, Jan, Herrera-Rivero, Marisol, Hahn, Tim, Lill, Christina, and Berger, Klaus. . “Associations of epigenetic aging with cortical thickness, brain age gaps, and neuroanatomical heterogeneity.” Preprint. medRxiv Cold Spring Harbor Laboratory Press. doi: 10.1101/2025.11.09.25339844.
- Moia, Stefano, Wang, Hao-Ting, Heinsfeld, S.Anibal, Jarecka, Dorota, Yang, Fang Yu, Heunis, Stephan, Svanera, Michele, Leener, DeBenjamin, Gondová, Andrea, Kim, Sin, Basavaraj, Arshitha, Bayer, M.M.Johanna, Bayrak, G.Roza, Bazin, Pierre-Louis, Bilgin, Poyraz Isil, Bollmann, Steffen, Borek, Daniel, Borghesani, Valentina, Cao, Trang, Chen, Gang, Vega, LaDe Alejandro, Dresbach, Sebastian, Ehses, Philipp, Ernsting, Jan, Esteves, Inês, Ferrante, Oscar, Garner, G.Kelly, Gau, Rémi, Germani, Elodie, Ghafari, Tara, Ghosh, S.Satrajit, Goodale, E.Sarah, Praag, van Gould D. Cassandra, Guay, Samuel, Gulban, Faruk Omer, Halchenko, O.Yaroslav, Hanke, Michael, Herholz, Peer, Heuer, Katja, Hoffstaedter, Felix, Huang, Ruoqi, Huber, Renzo, Jensen, Ole, Keeratimahat, Kan, Kosciessa, Q.Julian, Lukic, Sladjana, Magielse, Neville, Markiewicz, J.Christopher, Martin, G.Caroline, Maumet, Camille, Menacher, Anna, Mentch, Jeff, Mönch, Christian, More, Shammi, Muller-Rodriguez, Leonardo, Nastase, A.Samuel, Nicolaisen-Sobesky, Eliana, Nielson, M.Dylan, Nolan, R.Christopher, Paugam, François, Pinheiro-Chagas, Pedro, Pinho, Luísa Ana, Pizzuti, Alessandra, Poldrack, Benjamin, Poser, A.Benedikt, Rocca, Roberta, Sanz-Robinson, Jacob, Sarink, Kelvin, Sitek, R.Kevin, Spychala, Nadine, Stirnberg, Rüdiger, Szczepanik, Michał, Torabi, Mohammad, Toro, Roberto, Urchs, G.W.Sebastian, Valk, L.Sofie, Wagner, S.Adina, Waite, K.Laura, Waite, Q.Alexander, Waller, Lea, Wishard, J.Tyler, Wu, Jianxiao, Zhou, Yuchen, Bijsterbosch, D.Janine, and Community, Physiopy The. . “Proceedings of the OHBM Brainhack 2022.” Aperture Neuro 2014//4. doi: 10.52294/001c.92760.
- Winter, R.Nils, Blanke, Julian, Leenings, Ramona, Ernsting, Jan, Fisch, Lukas, Sarink, Kelvin, Barkhau, Carlotta, Emden, Daniel, Thiel, Katharina, Flinkenflügel, Kira, Winter, Alexandra, Goltermann, Janik, Meinert, Susanne, Dohm, Katharina, Repple, Jonathan, Gruber, Marius, Leehr, J.Elisabeth, Opel, Nils, Grotegerd, Dominik, Redlich, Ronny, Nitsch, Robert, Bauer, Jochen, Heindel, Walter, Gross, Joachim, Risse, Benjamin, Andlauer, M.F. Till, Forstner, J.Andreas, Nöthen, M.Markus, Rietschel, Marcella, Hofmann, G.Stefan, Pfarr, Julia-Katharina, Teutenberg, Lea, Usemann, Paula, Thomas-Odenthal, Florian, Wroblewski, Adrian, Brosch, Katharina, Stein, Frederike, Jansen, Andreas, Jamalabadi, Hamidreza, Alexander, Nina, Straube, Benjamin, Nenadić, Igor, Kircher, Tilo, Dannlowski, Udo, and Hahn, Tim. . “A Systematic Evaluation of Machine Learning–Based Biomarkers for Major Depressive Disorder.” JAMA Psychiatry 2024/4/81. doi: 10.1001/jamapsychiatry.2023.5083.
- Porschen, C, Ernsting, J, Brauckmann, P, Weiss, R, Würdemann, T, Booke, H, Amini, W, Maidowski, L, Risse, B, Hahn, T, and Groote, T. . “pyAKI - An Open Source Solution to Automated KDIGO classification.” Preprint. arXiv doi: 10.48550/arXiv.2401.12930.
- Fisch, L., Zumdick, S., Barkhau, C., Emden, D., Ernsting, J., Leenings, R., Sarink, K., Winter, N.R., Risse, B., Dannlowski, U., and Hahn, T. . “deepbet: Fast brain extraction of T1-weighted MRI using Convolutional Neural Networks.” Computers in Biology and Medicine 179. doi: 10.1016/j.compbiomed.2024.108845.
- Fisch, L., Heming, M., Schulte-Mecklenbeck, A., Gross, C.C., Zumdick, S., Barkhau, C., Emden, D., Ernsting, J., Leenings, R., Sarink, K., Winter, N.R., Dannlowski, U., Wiendl, H., Hörste, G.M.z., and Hahn, T. . “GateNet: A novel neural network architecture for automated flow cytometry gating.” Computers in Biology and Medicine 179. doi: 10.1016/j.compbiomed.2024.108820.
- Leenings, Ramona, Konowski, Maximilian, Winter, Nils R., Ernsting, Jan, Fisch, Lukas, Barkhau, Carlotta, Dannlowski, Udo, Lügering, Andreas, Jiang, Xiaoyi, and Hahn, Tim. . “C-TRUS: A novel dataset and initial benchmark for colon wall segmentation in transabdominal ultrasound .” in Proc. of ASMUS@MICCAI, edited by A Gómez, V Khanal, AP King and AL Namburete. Cham: Springer Publishing.
- Hahn, T, Winter, NR, Ernsting, J, Gruber, M, Mauritz, MJ, Fisch, L, Leenings, R, Sarink, K, Blanke, J, Holstein, V, Emden, D, Beisemann, M, Opel, N, Grotegerd, D, Meinert, S, Witt, S, Heindel, W, Nöthen, MM, Rietschel, M, Kircher, T, Forstner, AJ, Jansen, A, Nenadic, I, Andlauer, TFM, Müller-Myhsok, B, van, den Heuvel MP, Walter, M, Dannlowski, U, Jamalabadi, H, and Repple, J. . “Genetic, individual, and familial risk correlates of brain network controllability in major depressive disorder.” Molecular Psychiatry 28 (3): 1057–1063. doi: 10.1038/s41380-022-01936-6.
- Hahn, Tim, Jamalabadi, Hamidreza, Nozari, Erfan, Winter, Nils R., Ernsting, Jan, Gruber, Marius, Mauritz, Marco J., Grumbach, Pascal, Fisch, Lukas, Leenings, Ramona, Sarink, Kelvin, Blanke, Julian, Vennekate, Leon Kleine, Emden, Daniel, Opel, Nils, Grotegerd, Dominik, Enneking, Verena, Meinert, Susanne, Borgers, Tiana, Klug, Melissa, Leehr, Elisabeth J., Dohm, Katharina, Heindel, Walter, Gross, Joachim, Dannlowski, Udo, Redlich, Ronny, and Repple, Jonathan. . “Towards a network control theory of electroconvulsive therapy response.” PNAS Nexus 2 (2). doi: 10.1093/pnasnexus/pgad032.
- Hahn, T, Ernsting, J, Winter, NR, Holstein, V, Leenings, R, Beisemann, M, Fisch, L, Sarink, K, Emden, D, Opel, N, Redlich, R, Repple, J, Grotegerd, D, Meinert, S, Hirsch, JG, Niendorf, T, Endemann, B, Bamberg, F, Kröncke, T, Bülow, R, Völzke, H, von, Stackelberg O, Sowade, RF, Umutlu, L, Schmidt, B, Caspers, S, Kugel, H, Kircher, T, Risse, B, Gaser, C, Cole, JH, Dannlowski, U, and Berger, K. . “An Uncertainty-Aware, Shareable and Transparent Neural Network Architecture for Brain-Age Modeling.” Science advances 8 (1): eabg9471–eabg9471. doi: 10.1126/sciadv.abg9471.
- Leenings, R, Winter, NR, Plagwitz, L, Holstein, V, Ernsting, J, Sarink, K, Fisch, L, Steenweg, J, Kleine-Vennekate, L, Gebker, J, Emden, D, Grotegerd, D, Opel, N, Risse, B, Jiang, X, Dannlowski, U, and Hahn, T. . “PHOTONAI-A Python API for rapid machine learning model development.” PloS one 16. doi: 10.1371/journal.pone.0254062.
- Hahn, T, Fisch, L, Ernsting, J, Winter, NR, Leenings, R, Sarink, K, Emden, D, Kircher, T, Berger, K, and Dannlowski, U. . “From ‘Loose Fitting’ to High-Performance, Uncertainty-Aware Brain-Age Modelling.” Brain 144 (3) e31. doi: 10.1093/brain/awaa454.
- Sandmann, Sarah, Karimi, Mohsen, de Graaf, Aniek O, Rohde, Christian, Göllner, Stefanie, Varghese, Julian, Ernsting, Jan, Walldin, Gunilla, van der Reijden, Bert A, Müller-Tidow, Carsten, Malcovati, Luca, Hellström-Lindberg, Eva, Jansen, Joop H, and Dugas, Martin. . “appreci8: a pipeline for precise variant calling integrating 8 tools.” Bioinformatics 2018/24/34. doi: 10.1093/bioinformatics/bty518.
- Brix, TJ, Bruland, P, Sarfraz, S, Ernsting, J, Neuhaus, P, Storck, M, Doods, J, Ständer, S, and Dugas, M. . “ODM Data Analysis-A tool for the automatic validation, monitoring and generation of generic descriptive statistics of patient data.” PloS one 13. doi: 10.1371/journal.pone.0199242.
Scientific Talk
- Ernsting, Jan : “An uncertainty-aware, shareable, and transparent neural network architecture for brain-age modeling”. Virtual St. Andrews-Bonn meeting: Early career focus - focused on techniques rather than results, Online, .