Dr.rer.nat. ID: 41291
Rene Werner
Publications
Systematic Analysis of Jurkat T-Cell Deformation in Fluorescence Microscopy Data
Antoni, S-T., Ismail, O. M. F., Schetelig, D., Diercks, B-P., Werner, R., Wolf, I., Guse, A. & Schlaefer, A., 2017, Bildverarbeitung für die Medizin 2017: Algorithmen - Systeme - Anwendungen. Maier-Hain, K. H., Deserno, T., Handels, H. & Thomas, T. (eds.). 1 ed. Springer, p. 275-280 6 p. (Informatik aktuell).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Wrestling the Devil of Wasting Time: MPI System Matrix Recovery by Deep Learning
Baltruschat, I. M., Griese, F., Szwargulski, P. K., Werner, R. & Knopp, T., 2019, 9th International Workschop on Magnetic Particle Imaging (IWMPI 2018) . 1 ed. Infinite Science PublishingResearch output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
3d-SMRnet: Achieving a New Quality of MPI System Matrix Recovery by Deep Learning
Baltruschat, I. M., Szwargulski, P. K., Griese, F., Grosser, M., Werner, R. & Knopp, T., 10.2020, Medical Image Computing and Computer Assisted Intervention – MICCAI 2020: 23rd International Conference, Lima, Peru, October 4–8, 2020, Proceedings, Part II. 1 ed. Springer Nature Switzerland, p. 74-82 9 p. (Lecture Notes in Computer Science (LNCS); no. 12262).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Reduktion der Kalibrierungszeit für die Magnetpartikelbildgebung mittels Deep Learning
Baltruschat, I. M., Szwargulski, P., Griese, F., Grosser, M., Werner, R. & Knopp, T., 2021, Bildverarbeitung für die Medizin 2021 - Proceedings, German Workshop on Medical Image Computing, 2021. Palm, C., Handels, H., Maier-Hein, K., Deserno, T. M., Maier, A. & Tolxdorff, T. (eds.). Springer Science and Business Media Deutschland GmbH, p. 337 1 p. (Informatik aktuell).Research output: SCORING: Contribution to book/anthology › Conference contribution - Article for conference › Research › peer-review
Combining Good Old Random Forest and DeepLabv3+ for ISLES 2018 CT-Based Stroke Segmentation
Böhme, L., Madesta, F., Sentker, T. & Werner, R., 26.01.2019, Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries. 1 ed. Springer, p. 335-342 8 p. (Lecture Notes in Computer Science; vol. 11383).Research output: SCORING: Contribution to book/anthology › Conference contribution - Article for conference › Research › peer-review
P2X4 and P2X7 are essential players in basal T cell activity and Ca2+ signaling milliseconds after T cell activation
Brock, V. J., Wolf, I. M. A., Er-Lukowiak, M., Lory, N., Stähler, T., Woelk, L-M., Mittrücker, H-W., Müller, C. E., Koch-Nolte, F., Rissiek, B., Werner, R., Guse, A. H. & Diercks, B-P., 04.02.2022, In: SCI ADV. 8, 5, eabl9770.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Time-resolved role of P2X4 and P2X7 during CD8+ T cell activation
Brock, V. J., Lory, N. C., Möckl, F., Birus, M., Stähler, T., Woelk, L-M., Jaeckstein, M., Heeren, J., Koch-Nolte, F., Rissiek, B., Mittrücker, H-W., Guse, A. H., Werner, R. & Diercks, B-P., 2024, In: FRONT IMMUNOL. 15, p. 1258119Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Comparison of 3D and 4D Monte Carlo optimization in robotic tracking stereotactic body radiotherapy of lung cancer
Chan, M. K. H., Werner, R., Ayadi, M. & Blanck, O., 02.2015, In: STRAHLENTHER ONKOL. 191, 2, p. 161-71 11 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
ORAI1, STIM1/2, and RYR1 shape subsecond Ca2+ microdomains upon T cell activation.
Diercks, B-P., Werner, R., Weidemüller, P., Czarniak, F., Hernandez, L. C., Lehmann, C., Rosche, A., Krüger, A., Kaufmann, U., Vaeth, M., Failla, A., Zobiak, B., Kandil, F-I., Schetelig, D., Ruthenbeck, A., Meier, C., Lodygin, D., Flügel, A., Ren, D., Wolf, I., Feske, S. & Guse, A., 18.12.2018, In: SCIENCE SIGNALING. 11, 561, p. eaat0358Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
High-Resolution Calcium Imaging Method for Local Calcium Signaling
Diercks, B-P., Werner, R., Schetelig, D., Wolf, I. & Guse, A., 2019, Calcium-Binding Proteins of the EF-Hand Superfamily. 1 ed. Humana Press, Vol. 1929. p. 27-39 13 p.Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
A statistical shape and motion model for the prediction of respiratory lung motion
Ehrhardt, J., Werner, R., Schmidt-Richberg, A. & Handels, H., 2010, Medical Imaging 2010: Image Processing. SPIE, p. 531-539 9 p.Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Prediction of Respiratory Motion Using A Statistical 4D Mean Motion Model
Ehrhardt, J., Werner, R., Schmidt-Richberg, A. & Handels, H., 2009, The Second International Workshop on Pulmonary Image Analysis. CreateSpace, p. 3-14 12 p.Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
4D Motion Modeling: Estimation of Respiratory Motion for Radiation Therapy
Ehrhardt, J., Schmidt-Richberg, A., Werner, R. & Handels, H., 2009, World Congress on Medical Physics and Biomedical Engineering September 7 - 12, 2009 Munich, Germany (Ifmbe Proceedings). Springer-Verlag GmbH, p. 2166-2169 4 p.Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
An optical flow based method for improved reconstruction of 4D CT data sets acquired during free breathing.
Ehrhardt, J., Werner, R., Säring, D., Frenzel, T., Lu, W., Low, D. & Handels, H., 2007, In: MED PHYS. 34, 2, p. 711-721 2.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Variational Registration: A Flexible Open-Source ITK Toolbox for Nonrigid Image Registration
Ehrhardt, J., Schmidt-Richberg, A., Werner, R. & Handels, H., 2015, Bildverarbeitung für die Medizin 2015. Handels, H., Deserno, T. M., Meinzer, H-P. & Tolxdorff, T. (eds.). 1 ed. Berlin Heidelberg: Springer, p. 209-214 6 p. (Informatik Aktuell).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Under-reported dosimetry errors due to interplay effects during VMAT dose delivery in extreme hypofractionated stereotactic radiotherapy
Gauer, T., Sothmann, T., Blanck, O., Petersen, C. & Werner, R., 01.02.2018, In: STRAHLENTHER ONKOL. 194, 6, p. 570-579Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Skin Lesion Classification Using CNNs with Patch-Based Attention and Diagnosis-Guided Loss Weighting
Gessert, N., Sentker, T., Madesta, F., Schmitz, R., Kniep, H., Baltruschat, I., Werner, R. & Schlaefer, A., 02.2020, In: IEEE T BIO-MED ENG. 67, 2, p. 495-503 9 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Skin lesion classification using ensembles of multi-resolution EfficientNets with meta data
Gessert, N., Nielsen, M., Shaikh, M., Werner, R. & Schlaefer, A., 2020, In: METHODSX. 7, 7, p. 100864 8 p., 100864.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Submillimeter-Accurate Marker Localization within Low Gradient Magnetic Particle Imaging Tomograms
Griese, F., Knopp, T., Werner, R., Schlaefer, A. & Möddel, M., 23.03.2017, In: Int J Magn Part Imag. 3, 1, p. article ID 1703011 9 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
MRI-based field of view selection for precise, real-time targeting in MPI
Griese, F., Prieske, M., Möddel, M., Werner, R. & Knopp, T., 2019, 9th International Workshop on Magnetic Particle Imaging (IWMPI 2019). p. 207-208Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Analysis of Dose Shifts induced by Organ Movements during Treatment with TomoTherapy using a Motion Phantom and GafChromic EBT Films
Grohmann, C., Werner, R., Dirk, A. & Cremers, F., 2009, World Congress on Medical Physics and Biomedical Engineering September 7 - 12, 2009 Munich, Germany (Ifmbe Proceedings). Springer-Verlag GmbH, p. 1020-1023 4 p.Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Design, performance characteristics and application examples of a new 4D motion platform
Grohmann, C., Frenzel, T., Werner, R. & Cremers, F., 06.2015, In: Z MED PHYS. 25, 2, p. 156-167 12 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Dual NADPH oxidases DUOX1 and DUOX2 synthesize NAADP and are necessary for Ca2+ signaling during T cell activation
Gu, F., Krüger, A., Roggenkamp, H. G., Alpers, R., Lodygin, D., Jaquet, V., Möckl, F., Hernandez C, L. C., Winterberg, K., Bauche, A., Rosche, A., Grasberger, H., Kao, J. Y., Schetelig, D., Werner, R., Schröder, K., Carty, M., Bowie, A. G., Huber, S., Meier, C., Mittrücker, H-W., Heeren, J., Krause, K-H., Flügel, A., Diercks, B-P. & Guse, A. H., 16.11.2021, In: SCIENCE SIGNALING. 14, 709, eabe3800.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Spatio-temporal feature learning with reservoir computing for T-cell segmentation in live-cell Ca2+ fluorescence microscopy
Hadaeghi, F., Diercks, B-P., Schetelig, D., Damicelli, F., Wolf, I. M. A. & Werner, R., 15.04.2021, In: SCI REP-UK. 11, 1, 8233.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Reservoir Computing for Jurkat T-cell Segmentation in High Resolution Live Cell Ca2+ Fluorescence Microscopy
Hadäghi, F., Diercks, B-P., Wolf, I. & Werner, R., 01.04.2020, In: Proc IEEE ISBI 2020. 1, p. 1587-1591 5 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
4D medical image computing and visualization of lung tumor mobility in spatio-temporal CT image data.
Handels, H., Werner, R., Schmidt, R., Frenzel, T., Lu, W., Low, D. & Ehrhardt, J., 2007, In: INT J MED INFORM. 76, 3, p. 433-439 3.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Discordant and Converting Receptor Expressions in Brain Metastases from Breast Cancer: MRI-Based Non-Invasive Receptor Status Tracking
Heitkamp, A., Madesta, F., Amberg, S., Wahaj, S., Schröder, T., Bechstein, M., Meyer, L., Broocks, G., Hanning, U., Gauer, T., Werner, R., Fiehler, J., Gellißen, S. & Kniep, H. C., 23.05.2023, In: CANCERS. 15, 11, 2880.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
TV-L1-based 3D Medical Image Registration with the Census Cost Function
Hermann, S. & Werner, R., 2014, Image and Video Technology. Klette, R., Rivera, M. & Satoh, S. (eds.). 1 ed. Berlin, Heidelberg: Springer, Vol. 8333. p. 149-161 13 p. (Lecture Notes in Computer Science).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
High Accuracy Optical Flow for 3D Medical Image Registration Using the Census Cost Function
Hermann, S. & Werner, R., 2014, Image and Video Technology. Klette, R., Rivera, M. & Satoh, S. (eds.). 1 ed. Berlin Heidelberg: Springer, Vol. 8333. p. 23-35 13 p. (Lecture Notes in Computer Science).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Label Efficient Classification in Liquid Biopsy Data by Self-supervision
Husseini, H., Nielsen, M., Pantel, K., Wikman, H., Riethdorf, S. & Werner, R., 02.06.2023, Bildverarbeitung für die Medizin 2023: Proceedings, German Workshop on Medical Image Computing, Braunschweig, July 2-4, 2023. Deserno, T. M., Handels, H., Maier, A., Maier-Hein, K., Palm, C. & Tolxdorff, T. (eds.). 1 ed. Springer Vieweg, p. 261-266 6 p. (Informatik aktuell).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Spatial normalization for voxel-based lesion symptom mapping: impact of registration approaches
Jühling, D., Rajashekar, D., Cheng, B., Hilgetag, C. C., Forkert, N. D. & Werner, R., 17.01.2024, In: FRONT NEUROSCI-SWITZ. 18, p. 1296357Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Validation and Comparison of Approaches to Respiratory Motion Estimation
Kabus, S., Klinder, T., Murphy, K., Werner, R. & Sarrut, D., 2013, 4D Modeling and Estimation of Respiratory Motion for Radiation Therapy. Ehrhardt, J. & Lorenz, C. (eds.). 1 ed. Springer, p. 159-183 25 p. (Biological and Medical Physics, Biomedical Engineering).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
PAIP 2019: Liver cancer segmentation challenge
Kim, Y. J., Jang, H., Lee, K., Park, S., Min, S-G., Hong, C., Park, J. H., Lee, K., Kim, J., Hong, W., Jung, H., Liu, Y., Rajkumar, H., Khened, M., Krishnamurthi, G., Yang, S., Wang, X., Han, C. H., Kwak, J. T., Ma, J., Tang, Z., Marami, B., Zeineh, J., Zhao, Z., Heng, P-A., Schmitz, R., Madesta, F., Rösch, T., Werner, R., Tian, J., Puybareau, E., Bovio, M., Zhang, X., Zhu, Y., Chun, S. Y., Jeong, W-K., Park, P. & Choi, J., 01.2021, In: MED IMAGE ANAL. 67, p. 101854 16 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Radiomics of Brain MRI: Utility in Prediction of Metastatic Tumor Type
Kniep, H. C., Madesta, F., Schneider, T., Hanning, U., Schönfeld, M. H., Schön, G., Fiehler, J., Gauer, T., Werner, R. & Gellissen, S., 02.2019, In: RADIOLOGY. 290, 2, p. 479-487 9 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Required transition from research to clinical application: Report on the 4D treatment planning workshops 2014 and 2015
Knopf, A-C., Stützer, K., Richter, C., Rucinski, A., da Silva, J., Phillips, J., Engelsman, M., Shimizu, S., Werner, R., Jakobi, A., Göksel, O., Zhang, Y., Oshea, T., Fast, M., Perrin, R., Bert, C., Rinaldi, I., Korevaar, E. & McClelland, J., 07.2016, In: PHYS MEDICA. 32, 7, p. 874-882 9 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Regional Lung Ventilation Analysis Using Temporally Resolved Magnetic Resonance Imaging
Kolb, C., Wetscherek, A., Buzan, M. T., Werner, R., Rank, C. M., Kachelrie, M., Kreuter, M., Dinkel, J., Heuel, C. P. & Maier-Hein, K., 11.2016, In: J COMPUT ASSIST TOMO. 40, 6, p. 899-906 8 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Discrimination of the hierarchical structure of cortical layers in 2-photon microscopy data by combined unsupervised and supervised machine learning
Li, D., Zavaglia, M., Wang, G., Xie, H., Hu, Y., Werner, R., Guan, J-S. & Hilgetag, C. C., 15.05.2019, In: SCI REP-UK. 9, 1, p. 7424Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Single Image-Based Vignetting Correction for Improving the Consistency of Neural Activity Analysis in 2-Photon Functional Microscopy
Li, D., Wang, G., Werner, R., Xie, H., Guan, J-S. & Hilgetag, C-C., 2021, In: FRONT NEUROINFORM. 15, p. 674439 674439.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Self-consistent deep learning-based boosting of 4D cone-beam computed tomography reconstruction
Madesta, F., Gauer, T., Sentker, T. & Werner, R., 15.03.2019, Medical Imaging 2019: Image Processing. 1 ed. SPIE , Vol. 10949. p. 1094902 6 p.Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Widening the Focus: Biomedical Image Segmentation Challenges and the Underestimated Role of Patch Sampling and Inference Strategies
Madesta, F., Schmitz, R., Rösch, T. & Werner, R., 10.2020, MICCAI 2020. 1 ed. Springer Nature Switzerland, Vol. 12264. p. 289-298 10 p. (Lecture Notes in Computer Science (LNCS)).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Self-contained deep learning-based boosting of 4D cone-beam CT reconstruction
Madesta, F., Sentker, T., Gauer, T. & Werner, R., 11.2020, In: MED PHYS. 47, 11, p. 5619-5631 13 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Deep learning-based conditional inpainting for restoration of artifact-affected 4D CT images
Madesta, F., Sentker, T., Gauer, T. & Werner, R., 05.2024, In: MED PHYS. 51, 5, p. 3437-3454 18 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Simulation of spatiotemporal CT data sets using a 4D MRI-based lung motion model
Marx, M., Ehrhardt, J., Werner, R., Schlemmer, H-P. & Handels, H., 2014, In: INT J COMPUT ASS RAD. 9, 3, p. 401-9 9 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Deep Image Prior for Spatio-temporal Fluorescence Microscopy Images: DECO-DIP
Meyer, L., Woelk, L-M., Gee, C., Lohr, C., Arcot Kannabiran, S., Diercks, B-P. & Werner, R., 2024, Bildverarbeitung für die Medizin 2024: Proceedings, German Conference on Medical Image Computing, Erlangen, March 10–12, 2024. Maier, A., Deserno, TM., Handels, H., Maier-Hein, K., Palm, C. & Tolxdorff, TM. (eds.). 1 ed. Springer Vieweg, p. 322-327 6 p. (Informatik Aktuell).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Decision Forests with Spatio-temporal Features for Graph-based Tumour Segmentation in 4D Lung CT
Mirzaei, H., Tang, L., Werner, R. & Hamarneh, G., 2013, Machine Learning in Medical Imaging. Wu, G., Zhang, D., Shen, D., Yan, P., Suzuki, K. & Wang, F. (eds.). 1 ed. Springer, Vol. 8184. p. 179-186 8 p. (Lecture Notes in Computer Science).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Einfluss nicht-rigider Bildregistrierung auf 4D-Dosissimulation bei extrakranieller SBRT
Mogadas, N., Sothmann, T. & Werner, R., 2018, Bildverarbeitung für die Medizin: Algorithmen - Systeme - Anwendungen. Proceedings des Workshops vom 11. bis 13. März 2018 in Erlangen. Maier, A., Deserno, T., Handels, H., Maier-Hein, K., Palm, C. & Tolxdorff, T. (eds.). 1 ed. Springer Vieweg, p. 188-193 6 p.Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Influence of deformable image registration on 4D dose simulation for extracranial SBRT: A multi-registration framework study
Mogadas, N., Sothmann, T., Knopp, T., Gauer, T., Petersen, C. & Werner, R., 05.2018, In: RADIOTHER ONCOL. 127, 2, p. 225-232 8 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Self-reference-based and during-registration detection of motion artifacts in spatio-temporal image data
Mücke, E., Handels, H. & Werner, R., 2018, Medical Imaging 2018: Image Processing. Angelini, E. D. & Landman, B. A. (eds.). 1 ed. SPIE , Vol. 10574. p. 10574-1 - 10574-7 7 p. (Proceedings of SPIE).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Machbarkeitsstudie zur CNN-basierten Identifikation und TICI-Klassifizierung zerebraler ischämischer Infarkte in DSA-Daten
Nielsen, M., Waldmann, M., Frölich, A., Fiehler, J. & Werner, R., 07.02.2019, Bildverarbeitung für die Medizin 2019: Algorithmen – Systeme – Anwendungen. Proceedings des Workshops vom 17. bis 19. März 2019 in Lübeck. 1 ed. Springer Vieweg, p. 200-205 6 p. (Informatik aktuell).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review
Time Matters: Handling Spatio-Temporal Perfusion Information for Automated TICI Scoring
Nielsen, M., Waldmann, M., Sentker, T., Frölich, A., Fiehler, J. & Werner, R., 10.2020, MICCAI 2020. 1 ed. Springer Nature Switzerland, Vol. 12266. p. 86-96 11 p. (Lecture Notes in Computer Science (LNCS)).Research output: SCORING: Contribution to book/anthology › SCORING: Contribution to collected editions/anthologies › Research › peer-review