Julia Schottenhamml, M. Sc.
- Since 03/2018:
PhD Candidate at the Pattern Recognition Lab, Friedrich-Alexander University Erlangen-Nürnberg - 10/2015 – 09/2016:
Visiting Student at the Biomedical Optical Imaging and Biophotonics Group,Massachusetts Institute of Technology
- 04/2014 – 01/2018:
Master of Science in Computer Science, Friedrich-Alexander University Erlangen-Nürnberg - 10/2010 – 03/2014:
Bachelor of Science in Medical Engineering, Friedrich-Alexander University Erlangen-Nürnberg
Friedrich-Alexander-University Erlangen-Nürnberg
- 12/2016 – 03/2017:
Student research assistant, Digital Sports Group - 04/2015 – 10/2015:
Student teaching assistant, Exercises in Algorithms and Data Structures
- 06/2014 – 03/2015:
Student research assistant, Digital Sports Group - 04/2013 – 10/2013:
Student teaching assistant, Exercises in Algorithms and Data Structures - 10/2012 – 04/2013:
Student teaching assistant, Exercises in Signals and Systems 1
Massachusetts Institute of Technology
- 10/2015 – 09/2016:
Visiting Student at the Biomedical Optical Imaging and Biophotonics Group,Massachusetts Institute of Technology
Forschungs-Neutronenquelle Heinz Maier-Leibnitz (FRMII)
- 01/2014 – 02/2014:
Internship, Forschungs-Neutronenquelle Heinz Maier-Leibnitz (FRMII), Munich
- 2017: MIT Outstanding Poster Award at ARVO 2017
- 2017: Grant Wood Balkema Memorial Travel Grant
- Unsupervised OCTA preserving OCT denoising
Denoising in Optical Coherence Tomography (OCT) and OCT angiography (OCTA) is a very important topic in order to compensate the low signal to noise ratio inherent to that technology. However, the speckle in OCT images consists not only of speckle noise but also of speckle information caused by the movement of blood cells in the vessels. This information is actually used to compute the OCTA images from OCT scans. All existing denoising methods at the moment do not distinguish between speckle noise and speckle information and therefore eradicate the information as well as the speckle. Another drawback is that because of the nature of OCT devices, no ground truth can be generated. At the moment this is solved by acquiring multiple scans an performing an averaging. This has the downside that a very good registration is needed and that scan times are longer, which may cause problems in elderly people or people with certain pathologies that have a hard time focusing. We therefore investigate unsupervised methods to distinguish between speckle information and speckle noise and only remove the latter.
This project is carried out in collaboration with Prof. Fujimoto’s Biomedical Optical Imaging and Biophotonics Group at MIT in Cambridge, USA and the opthalmic clinic of the university hospital Erlangen. - OCT-OCTA Segmentation of the Bruch’s Membrane in the Presence of Pathology:
Because of the ever increasing size of OCT(A) data sets, manual segmentation of ocular layers is typically impractically laborious, necessitating the usage of automatic algorithms. While automatic segmentation of ocular layers in the normal eye can be challenging, automatic segmentation in the presence of pathology, which often causes significant ocular distortions, is more challenging still.Perhaps nowhere is the demand for accurate segmentation more stringent than in OCTA analysis of the choriocapillaris. Analysis of the choriocapillaris is of great interest in studying a number of diseases, including age-related macular degeneration (AMD) and diabetic retinopathy (DR), where the choriocapillaris is thought to play an important role. En face OCTA analysis of the choriocapillaris typically requires segmentation of Bruch’s membrane (BM), an acellular matrix situated between the retinal pigment epithelium (RPE) and choriocapillaris. However, to our knowledge, all previous publications on segmenting the BM have exclusively used OCT data. We think that OCTA data can be used synergistically alongside OCT data to segment Bruch’s membrane, as well as other ocular structures. As such, the scope of this project is to explore different ways of incorporating and exploiting the additional information provided by the OCTA data in order to get more accurate and robust segmentation results for the BM in the presence of pathology.
This project is carried out in collaboration with Prof. Fujimoto’s Biomedical Optical Imaging and Biophotonics Group at MIT in Cambridge, USA.
2019
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PPP Brasilien 2019
(Third Party Funds Single)
Term: January 1, 2019 - December 31, 2020
Funding source: Deutscher Akademischer Austauschdienst (DAAD)
2018
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Automatic Intraoperative Tracking for Workflow and Dose Monitoring in X-Ray-based Minimally Invasive Surgeries
(Third Party Funds Single)
Term: June 1, 2018 - May 31, 2021
Funding source: Bundesministerium für Bildung und Forschung (BMBF)The goal of this project is the investigation of multimodal methods for the evaluation of interventional workflows in the operation room. This topic will be researched in an international project context with partners in Germany and in Brazil (UNISINOS in Porto Alegre). Methods will be developed to analyze the processes in an OR based on signals from body-worn sensors, cameras and other modalities like X-ray images recorded during the surgeries. For data analysis, techniques from the field of computer vision, machine learning and pattern recognition will be applied. The system will be integrated in a way that body-worn sensors developed by Portabiles as well as angiography systems produced by Siemens Healthcare can be included alongside.
2021
Journal Articles
Efficient and high accuracy 3-D OCT angiography motion correction in pathology
In: Biomedical Optics Express 12 (2021), p. 125-146
ISSN: 2156-7085
DOI: 10.1364/BOE.411117
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Maximum a posteriori signal recovery for optical coherence tomography angiography image generation and denoising
In: Biomedical Optics Express 12 (2021), p. 55-68
ISSN: 2156-7085
DOI: 10.1364/BOE.408903
URL: https://www.osapublishing.org/boe/fulltext.cfm?uri=boe-12-1-55&id=444277
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OCT-OCTA segmentation: Combining structural and blood flow information to segment bruch's membrane
In: Biomedical Optics Express 12 (2021), p. 84-99
ISSN: 2156-7085
DOI: 10.1364/BOE.398222
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Conference Contributions
Analysis of Interventional Workflow Phases based on Image Classification
65th Annual Meeting of the German Association for Medical Informatics, Biometry and Epidemiology (GMDS) (Berlin (online conference), September 6, 2020 - September 9, 2020)
In: 65th Annual Meeting of the German Association for Medical Informatics, Biometry and Epidemiology (GMDS) 2021
DOI: 10.3205/20gmds187
URL: https://www.egms.de/static/en/meetings/gmds2020/20gmds187.shtml
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RGB-D-based Human Detection and Segmentation for Mobile Robot Navigation in Industrial Environments
16th International Joint Conference on Computer Vision, Imaging and Computer Graphics Theory and Applications (VISIGRAPP 2021) (, February 8, 2021 - February 10, 2021)
DOI: 10.5220/0010187702190226
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Abstract: Maximum A-posteriori Signal Recovery for OCT Angiography Image Generation
German Workshop on Medical Image Computing, 2021 (Regensburg, DEU, March 7, 2021 - March 9, 2021)
In: Christoph Palm, Heinz Handels, Klaus Maier-Hein, Thomas M. Deserno, Andreas Maier, Thomas Tolxdorff (ed.): Informatik aktuell 2021
DOI: 10.1007/978-3-658-33198-6_61
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2020
Journal Articles
Novel biomarker of sphericity and cylindricity indices in volume-rendering optical coherence tomography angiography in normal and diabetic eyes: a preliminary study
In: Graefes Archive For Clinical and Experimental Ophthalmology (2020)
ISSN: 0721-832X
DOI: 10.1007/s00417-019-04582-x
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Conference Contributions
Fully automatic separation of three capillary plexuses in the macular region
Annual Meeting of the Association-for-Research-in-Vision-and-Ophthalmology (ARVO) (ONLINE, May 1, 2020 - May 7, 2020)
In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE, ROCKVILLE: 2020
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Compressed sensing for optical coherence tomography angiography volume generation
International workshop on Algorithmen - Systeme - Anwendungen, 2020 (Berlin, March 15, 2020 - March 17, 2020)
In: Thomas Tolxdorff, Thomas M. Deserno, Heinz Handels, Andreas Maier, Klaus H. Maier-Hein, Christoph Palm (ed.): Informatik aktuell 2020
DOI: 10.1007/978-3-658-29267-6_19
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2019
Journal Articles
Spatial Distribution of Choriocapillaris Impairment in Eyes with Choroidal Neovascularization Secondary to Age-Related Macular Degeneration
In: Retina-The Journal of Retinal and Vitreous Diseases (2019)
ISSN: 0275-004X
DOI: 10.1097/IAE.0000000000002556
URL: https://journals.lww.com/retinajournal/Abstract/publishahead/SPATIAL_DISTRIBUTION_OF_CHORIOCAPILLARIS.96058.aspx
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Conference Contributions
Correction of artifacts from misregistered B-scans in orthogonally scanned and registered OCT angiography
ARVO Annual Meeting 2019 (Vancouver, B.C., Canada, April 28, 2019 - May 2, 2019)
In: Investigative Ophthalmology & Visual Science 2019
URL: https://iovs.arvojournals.org/article.aspx?articleid=2745781&resultClick=1
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Deep learning based hybrid OCT-OCTA segmentation of Bruch's membrane in pathology
Annual Meeting of the Association-for-Research-in-Vision-and-Ophthalmology (ARVO) (Vancouver, April 28, 2019 - May 2, 2019)
In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE, ROCKVILLE: 2019
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Using Medical Image Reconstruction Methods for Denoising of OCTA Data
ARVO Annual Meeting 2019 (Vancouver, B.C., Canada, April 28, 2019 - May 2, 2019)
In: Investigative Ophthalmology & Visual Science 2019
URL: https://iovs.arvojournals.org/article.aspx?articleid=2746928&resultClick=1
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Analysis by adversarial synthesis - A novel approach for speech vocoding
20th Annual Conference of the International Speech Communication Association: Crossroads of Speech and Language, INTERSPEECH 2019 (Graz, AUT, September 15, 2019 - September 19, 2019)
In: Gernot Kubin, Thomas Hain, Bjorn Schuller, Dina El Zarka, Petra Hodl (ed.): Proceedings of the Annual Conference of the International Speech Communication Association, INTERSPEECH 2019
DOI: 10.21437/Interspeech.2019-1195
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Unobtrusive Estimation of In-Stroke Boat Rotation in Rowing Using Wearable Sensors
12th International Symposium on Computer Science in Sport (IACSS) (Moscow, Russia, July 8, 2019 - July 10, 2019)
In: Springer (ed.): Proceedings of the 12th International Symposium on Computer Science in Sport (IACSS 2019) 2019
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2018
Journal Articles
Analyzing relative blood flow speeds in choroidal neovascularization using variable interscan time analysis OCT angiography
In: Ophthalmology Retina 2 (2018), p. 306-319
ISSN: 2468-7219
DOI: 10.1016/j.oret.2017.08.013
URL: https://www.sciencedirect.com/science/article/abs/pii/S2468653017303561?via=ihub
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Conference Contributions
3-D OCT Motion Correction Efficiently Enhanced with OCT Angiography
ARVO Annual Meeting 2018 (Honolulu, HI, April 29, 2018 - May 3, 2018)
In: Investigative Ophthalmology & Visual Science 2018
URL: https://iovs.arvojournals.org/article.aspx?articleid=2694583&resultClick=1
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A Joint Probabilistic Model for Speckle Variance, Amplitude Decorrelation and Interframe Variance (IFV) Optical Coherence Tomography Angiography
Bildverarbeitung für die Medizin 2018 - Algorithmen - Systeme - Anwendungen (Erlangen, March 11, 2018 - March 13, 2018)
In: Proceedings des Workshops Bildverarbeitung für die Medizin 2018 - Algorithmen - Systeme - Anwendungen 2018
DOI: 10.1007/978-3-662-56537-7_37
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OCT-OCTA Segmentation
Bildverarbeitung für die Medizin 2018 (Erlangen, March 11, 2018 - March 13, 2018)
In: Maier, Andreas
Deserno, Thomas Martin
Handels, Heinz
Maier-Hein, Klaus
C., Palm
Tolxdorff, Thomas (ed.): Bildverarbeitung für die Medizin 2018, Berlin: 2018
DOI: 10.1007/978-3-662-56537-7_76
URL: https://link.springer.com/chapter/10.1007/978-3-662-56537-7_76
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2017
Journal Articles
The Definition, Rationale, and Effects of Thresholding in OCT Angiography
In: Ophthalmology Retina 1/2017 (2017), p. 435-447
ISSN: 2468-7219
DOI: 10.1016/j.oret.2017.01.019
URL: https://www.sciencedirect.com/science/article/abs/pii/S2468653017300283
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Photoreceptor Layer Thickness Changes During Dark Adaptation Observed With Ultrahigh-Resolution Optical Coherence Tomography
In: Investigative Ophthalmology & Visual Science 58 (2017), p. 4632-4643
ISSN: 0146-0404
DOI: 10.1167/iovs.17-22171
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Conference Contributions
Flow Void Analysis: Multiscale Quantitation and Visualization of Choriocapillaris Alterations in Age-Related Macular Degeneration Using OCT Angiography
ARVO Annual Meeting 2017 (Baltimore, MD, USA, May 7, 2017 - May 11, 2017)
In: Investigative Ophthalmology & Visual Science 2017
Open Access: https://iovs.arvojournals.org/article.aspx?articleid=2637739&resultClick=1
URL: https://www5.informatik.uni-erlangen.de/Forschung/Publikationen/2017/Alibhai17-FVA.pdf
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Hybrid OCT-OCTA Vessel Visualization for Projection-Free Display of the Intermediate and Deep Retinal Plexuses
ARVO Annual Meeting 2017 (Baltimore, MD, USA, May 7, 2017 - May 11, 2017)
In: Investigative Ophthalmology & Visual Science 2017
URL: https://www5.informatik.uni-erlangen.de/Forschung/Publikationen/2017/Ploner17-HOV.pdf
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OCT-OCTA Segmentation: a Novel Framework and an Application to Segment Bruch's Membrane in the Presence of Drusen
ARVO Annual Meeting 2017 (Baltimore, MD, USA, May 7, 2017 - May 11, 2017)
In: Investigative Ophthalmology & Visual Science 2017
URL: https://www5.informatik.uni-erlangen.de/Forschung/Publikationen/2017/Schottenhamml17-OSA.pdf
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Variable Interscan Time Analysis (VISTA-) Optical Coherence Tomography Angiography (OCTA) of Blood Flow Speeds in Eyes with Diabetic Retinopathy
ARVO Annual Meeting 2017 (Baltimore, MD, USA, May 7, 2017 - May 11, 2017)
In: Investigative Ophthalmology & Visual Science, ARVO: 2017
URL: https://iovs.arvojournals.org/article.aspx?articleid=2637998&resultClick=1
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2016
Journal Articles
An Automatic, Intercapillary Area-based Algorithm for Quantifying Diabetes-related Capillary Dropout Using Optical Coherence Tomography Angiography
In: Retina (Philadelphia, Pa.) 36 (2016), p. S93-S101
ISSN: 1539-2864
DOI: 10.1097/IAE.0000000000001288
URL: https://www.ncbi.nlm.nih.gov/pubmed/28005667
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Toward Quantitative Optical Coherence Tomography Angiography: Visualizing Blood Flow Speeds in Ocular Pathology Using Variable Interscan Time Analysis
In: Retina (Philadelphia, Pa.) 32 (2016), p. S118-S126
ISSN: 1539-2864
DOI: 10.1097/IAE.0000000000001328
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Conference Contributions
An automatic algorithm measuring the retinal intercapillary area to assess diabetic retinopathy
ARVO Annual Meeting 2016 (Seattle, WA, USA, May 1, 2016 - May 5, 2016)
In: Investigative Ophthalmology & Visual Science 2016
URL: https://www5.informatik.uni-erlangen.de/Forschung/Publikationen/2016/Schottenhamml16-AAA.pdf
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Toward quantitative OCT angiography: visualizing flow impairment using variable interscan time analysis (VISTA)
ARVO Annual Meeting 2016 (Seattle, WA, USA, May 1, 2016 - May 5, 2016)
In: Investigative Ophthalmology & Visual Science 2016
URL: https://www5.informatik.uni-erlangen.de/Forschung/Publikationen/2016/Ploner16-TQO.pdf
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2014
Journal Articles
Quantitative 3D-OCT motion correction with tilt and illumination correction, robust similarity measure and regularization
In: Biomedical Optics Express 5 (2014), p. 2591-2613
ISSN: 2156-7085
DOI: 10.1364/BOE.5.002591
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