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Maloca PM, Müller PL, Lee AY, Tufail A, Balaskas K, Niklaus S, Kaiser P, Suter S, Zarranz-Ventura J, Egan C, Scholl HPN, Schnitzer TK, Singer T, Hasler PW, Denk N. Unraveling the deep learning gearbox in optical coherence tomography image segmentation towards explainable artificial intelligence. Commun Biol 2021; 4:170. [PMID: 33547415 PMCID: PMC7864998 DOI: 10.1038/s42003-021-01697-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2020] [Accepted: 01/13/2021] [Indexed: 01/30/2023] Open
Abstract
Machine learning has greatly facilitated the analysis of medical data, while the internal operations usually remain intransparent. To better comprehend these opaque procedures, a convolutional neural network for optical coherence tomography image segmentation was enhanced with a Traceable Relevance Explainability (T-REX) technique. The proposed application was based on three components: ground truth generation by multiple graders, calculation of Hamming distances among graders and the machine learning algorithm, as well as a smart data visualization ('neural recording'). An overall average variability of 1.75% between the human graders and the algorithm was found, slightly minor to 2.02% among human graders. The ambiguity in ground truth had noteworthy impact on machine learning results, which could be visualized. The convolutional neural network balanced between graders and allowed for modifiable predictions dependent on the compartment. Using the proposed T-REX setup, machine learning processes could be rendered more transparent and understandable, possibly leading to optimized applications.
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Affiliation(s)
- Peter M. Maloca
- grid.508836.0Institute of Molecular and Clinical Ophthalmology Basel (IOB), Basel, Switzerland ,grid.410567.1OCTlab, Department of Ophthalmology, University Hospital Basel, Basel, Switzerland ,grid.6612.30000 0004 1937 0642Department of Ophthalmology, University of Basel, Basel, Switzerland ,grid.436474.60000 0000 9168 0080Moorfields Eye Hospital NHS Foundation Trust, London, UK
| | - Philipp L. Müller
- grid.436474.60000 0000 9168 0080Moorfields Eye Hospital NHS Foundation Trust, London, UK ,grid.10388.320000 0001 2240 3300Department of Ophthalmology, University of Bonn, Bonn, Germany
| | - Aaron Y. Lee
- grid.267047.00000 0001 2105 7936Department of Ophthalmology, Puget Sound Veteran Affairs, Seattle, WA USA ,grid.34477.330000000122986657eScience Institute, University of Washington, Seattle, WA USA ,grid.34477.330000000122986657Department of Ophthalmology, University of Washington, Seattle, WA USA
| | - Adnan Tufail
- grid.436474.60000 0000 9168 0080Moorfields Eye Hospital NHS Foundation Trust, London, UK
| | - Konstantinos Balaskas
- grid.436474.60000 0000 9168 0080Moorfields Eye Hospital NHS Foundation Trust, London, UK ,Moorfields Ophthalmic Reading Centre, London, UK
| | - Stephanie Niklaus
- grid.417570.00000 0004 0374 1269Pharma Research and Early Development (pRED), Pharmaceutical Sciences (PS), Roche, Innovation Center Basel, Basel, Switzerland
| | - Pascal Kaiser
- grid.483647.aSupercomputing Systems, Zurich, Switzerland
| | - Susanne Suter
- grid.483647.aSupercomputing Systems, Zurich, Switzerland ,grid.19739.350000000122291644Zurich University of Applied Sciences, Waedenswil, Switzerland
| | - Javier Zarranz-Ventura
- grid.410458.c0000 0000 9635 9413Institut Clínic d’Oftalmologia, Hospital Clínic de Barcelona, Barcelona, Spain
| | - Catherine Egan
- grid.436474.60000 0000 9168 0080Moorfields Eye Hospital NHS Foundation Trust, London, UK
| | - Hendrik P. N. Scholl
- grid.508836.0Institute of Molecular and Clinical Ophthalmology Basel (IOB), Basel, Switzerland ,grid.6612.30000 0004 1937 0642Department of Ophthalmology, University of Basel, Basel, Switzerland
| | - Tobias K. Schnitzer
- grid.417570.00000 0004 0374 1269Pharma Research and Early Development (pRED), Pharmaceutical Sciences (PS), Roche, Innovation Center Basel, Basel, Switzerland
| | - Thomas Singer
- grid.417570.00000 0004 0374 1269Pharma Research and Early Development (pRED), Pharmaceutical Sciences (PS), Roche, Innovation Center Basel, Basel, Switzerland
| | - Pascal W. Hasler
- grid.410567.1OCTlab, Department of Ophthalmology, University Hospital Basel, Basel, Switzerland ,grid.6612.30000 0004 1937 0642Department of Ophthalmology, University of Basel, Basel, Switzerland
| | - Nora Denk
- grid.6612.30000 0004 1937 0642Department of Ophthalmology, University of Basel, Basel, Switzerland ,grid.417570.00000 0004 0374 1269Pharma Research and Early Development (pRED), Pharmaceutical Sciences (PS), Roche, Innovation Center Basel, Basel, Switzerland
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