3D CATBraTS: Channel Attention Transformer for Brain Tumour Semantic Segmentation

El Badaoui, R., Bonmati Coll, E., Psarrou, A. and Villarini, B. 2023. 3D CATBraTS: Channel Attention Transformer for Brain Tumour Semantic Segmentation. 36th IEEE International Symposium on Computer-Based Medical Systems (IEEE CBMS2023). L'Aquila, Italy 24 May - 22 Jun 2023 IEEE . https://doi.org/10.1109/cbms58004.2023.00267

Title3D CATBraTS: Channel Attention Transformer for Brain Tumour Semantic Segmentation
AuthorsEl Badaoui, R., Bonmati Coll, E., Psarrou, A. and Villarini, B.
TypeConference paper
Abstract

Brain tumour diagnosis is a challenging task yet crucial for planning treatments to stop or slow the growth of a tumour. In the last decade, there has been a dramatic increase in the use of convolutional neural networks (CNN) for their high performance in the automatic segmentation of tumours in medical images. More recently, Vision Transformer (ViT) has become a central focus of medical imaging for its robustness and efficiency when compared to CNNs. In this paper, we propose a novel 3D transformer named 3D CATBraTS for brain tumour semantic segmentation on magnetic resonance images (MRIs) based on the state-of-the-art Swin transformer with a modified CNN-encoder architecture using residual blocks and a channel attention module. The proposed approach is evaluated on the BraTS 2021 dataset and achieved quantitative measures of the mean Dice similarity coefficient (DSC) that surpasses the current state-of-the-art approaches in the validation phase.

KeywordsCNN, Transformers, ViT, Semantic Segmentation
Year2023
Conference36th IEEE International Symposium on Computer-Based Medical Systems (IEEE CBMS2023)
PublisherIEEE
Accepted author manuscript
Publication dates
Published17 Jul 2023
Journal2023 IEEE CBMS Proceedings
Digital Object Identifier (DOI)https://doi.org/10.1109/cbms58004.2023.00267

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Licata, A., Psarrou, A. and Kokla, V. 2009. An ink texture descriptor for nir-imaged medieval documents. in: Proceedings of the 16th IEEE International Conference on Image Processing: ICIP 2009, November 2009, Cairo IEEE . pp. 1997-2000

Revealing the visually unknown in ancient manuscripts with a similarity measure for IR-imaged inks
Licata, A., Psarrou, A. and Kokla, V. 2009. Revealing the visually unknown in ancient manuscripts with a similarity measure for IR-imaged inks. in: Proceedings of the 10th International Conference on Document Analysis and Recognition: ICDAR 2009. 26 - 29 July 2009, Barcelona, Catalonia, Spain IEEE . pp. 818-822

Watercolour identification based on machine vision analysis
Kokla, V., Psarrou, A. and Konstantinou, V. 2009. Watercolour identification based on machine vision analysis. in: Proceedings of New Media Art Conference 2008, 7-9 Nov. 2008, Shanghai, China Shanghai, P.R. China Tongji University Press. pp. 133-143

Trends on interactive platforms for social media through Web2.0
Jin, L., Psarrou, A., Cao, S. and Chen, Y. 2009. Trends on interactive platforms for social media through Web2.0. in: International Conference on Management and Service Science. MASS '09. 20-22 Sept. 2009 IEEE .

Generic colour image segmentation via multi-stage region merging
Gupta, G., Psarrou, A. and Angelopoulou, A. 2009. Generic colour image segmentation via multi-stage region merging. in: Proceedings of the 10th Workshop on Image Analysis for Multimedia Interactive Services (WIAMIS '09) IEEE . pp. 185-188

Unsupervised classification for ancient manuscript analysis
Lu, K., Psarrou, A., Licata, A., Konstantinou, V. and Kokla, V. 2008. Unsupervised classification for ancient manuscript analysis. in: Proceedings of the International MultiConference of Engineers and Computer Scientists (IMECS'08), 19-20th March 2008, Hong-Kong International Association of Engineers. pp. 348-353

Active-GNG: model acquisition and tracking in cluttered backgrounds
Angelopoulou, A., Psarrou, A., Garcia Rodriguez, J. and Gupta, G. 2008. Active-GNG: model acquisition and tracking in cluttered backgrounds. in: VNBA '08: Proceeding of the 1st ACM workshop on vision networks for behavior analysis ACM. pp. 17-22

Computational models for pigment analysis
Kokla, V., Psarrou, A. and Konstantinou, V. 2008. Computational models for pigment analysis. Applied Physics A: Materials Science & Processing. 90 (1), pp. 15-22. https://doi.org/10.1007/s00339-007-4236-x

Ink discrimination based on co-occurrence analysis of visible and infrared images
Kokla, V., Psarrou, A. and Konstantinou, V. 2007. Ink discrimination based on co-occurrence analysis of visible and infrared images. in: Proceedings of the Ninth International Conference on Document Analysis and Recognition, 23-26 Sept. 2007 (ICDAR 2007) Los Alamitos, USA IEEE .

A Bayesian decision model for watercolour analysis
Kokla, V., Psarrou, A. and Konstantinou, V. 2007. A Bayesian decision model for watercolour analysis. in: Fotakis, C., Pezzati, L. and Salimbeni, R. (ed.) O3A: optics for arts, architecture, and archaeology: 20-22 June 2007, Munich, Germany Bellingham, Wash. SPIE.

Robust modelling and tracking of NonRigid objects using Active-GNG
Angelopoulou, A., Psarrou, A., Gupta, G. and Garcia Rodriguez, J. 2007. Robust modelling and tracking of NonRigid objects using Active-GNG. in: IEEE Workshop on Non-rigid Registration and Tracking through Learning, NRTL 2007, in conjunction with ICCV 2007, 14-21 October 2007, Rio de Janeiro Los Alamitos, USA IEEE . pp. 1-7

Nonparametric modelling and tracking with Active-GNG
Angelopoulou, A., Psarrou, A., Gupta, G. and Garcia Rodriguez, J. 2007. Nonparametric modelling and tracking with Active-GNG. in: Lew, M., Sebe, N., Huang, T.S. and Bakker, E.M. (ed.) Human-Computer Interaction: IEEE international workshop, HCI 2007, Rio de Janeiro, Brazil, October 20, 2007; proceedings Berlin Springer.

The characterization if inks through image-based analysis
Kokla, V., Psarrou, A. and Konstantinou, V. 2006. The characterization if inks through image-based analysis. in: The object in context: crossing conservation boundaries Munich, Germany International Institute for Conservation of Historic & Artistic Works. pp. 322

Probability analysis in art conservation
Kokla, V., Psarrou, A. and Konstantinou, V. 2006. Probability analysis in art conservation. in: Ranchordas, A., Araujo, H. and Encarnacao, B. (ed.) VISAPP 2006: Proceedings of the First International Conference on Computer Vision Theory and Applications Portugal INSTICC Press. pp. 508-514

Ink recognition based on statistical classification methods
Kokla, V., Psarrou, A. and Konstantinou, V. 2006. Ink recognition based on statistical classification methods. in: Second International Conference on Document Image Analysis for Libraries, 2006. DIAL '06. USA IEEE . pp. 254-264

Automatically building 2D statistical shapes using the topology preservation model GNG
Garcia Rodriguez, J., Angelopoulou, A., Psarrou, A. and Revett, K. 2006. Automatically building 2D statistical shapes using the topology preservation model GNG. in: Narayanan, P.J., Nayar, S.K. and Shum, H.Y. (ed.) Computer Vision ACCV 2006: 7th Asian Conference on Computer Vision, Hyderabad, India, January 13-16, 2006: Proceedings, Part I Springer.

Probablistic image-based characterisation of manuscript inks
Psarrou, A. and Angelopoulou, A. 2005. Probablistic image-based characterisation of manuscript inks. SPIE International Symposium on Optical Metrology. Munich, Germany 13-17 Jun 2005

Probabilistic image-based characterization of manuscript inks
Kokla, V., Psarrou, A. and Konstantinou, V. 2005. Probabilistic image-based characterization of manuscript inks. in: Salimbeni, R. and Pezzati, L. (ed.) Proceedings of SPIE: optical methods for arts and archaeology International Society for Optical Engineering.

Automatic landmark extraction from a class of hands using growing neural gas
Angelopoulou, A., Garcia Rodriguez, J. and Psarrou, A. 2005. Automatic landmark extraction from a class of hands using growing neural gas. in: Proceedings of the 9th IAPR Conference on Machine Vision Applications, MVA 2005 Tokyo, Japan IAPR MVA Conference Committee. pp. 168-171

Key-frame extraction algorithm using entropy difference
Mentzelopoulos, M. and Psarrou, A. 2004. Key-frame extraction algorithm using entropy difference. in: Proceedings of the 6th ACM SIGMM International Workshop on Multimedia Information Retrieval New York, USA ACM. pp. 39-45

Delivering distance learning material via interactive television in the UK: a dynamic content-based inferface
Angelopoulou, A., Thomas, S., Konstantinou, V. and Psarrou, A. 2004. Delivering distance learning material via interactive television in the UK: a dynamic content-based inferface. 21st ICDE Conference on Open Learning and Distance Education. Hong Kong 18-21 Feb 2004

Evaluating statistical shape models for automatic landmark generation on a class of human hands
Angelopoulou, A. and Psarrou, A. 2004. Evaluating statistical shape models for automatic landmark generation on a class of human hands. International Archives of Photogrammetry, Remote Sensing and Spatial Information Sciences. 34 (XXX).

diARTgnosis: study of European religious painting
Angelopoulou, A., Mantratzis, C., Psarrou, A. and Konstantinou, V. 2004. diARTgnosis: study of European religious painting. 2nd International Conference of Museology. Mytilene, Greece 28 Jun - 02 Jul 2004

A dynamic model for delivering distance learning material via interactive television
Angelopoulou, A., Thomas, S., Gallahan, P. and Psarrou, A. 2003. A dynamic model for delivering distance learning material via interactive television. Second International Conference on Multimedia and ICTs in Education. Badajoz, Spain 03-06 Dec 2003

Recognition of human gestures and behaviour based on motion trajectories
Psarrou, A., Gong, S. and Walter, M. 2002. Recognition of human gestures and behaviour based on motion trajectories. Image and Vision Computing. 20 (5-6), pp. 349-358. https://doi.org/10.1016/S0262-8856(02)00007-0

Corresponding dynamic appearances
Gong, S., Psarrou, A. and Romdani, S. 2002. Corresponding dynamic appearances. Image and Vision Computing. 20 (4), pp. 307-318. https://doi.org/10.1016/S0262-8856(02)00025-2

Image processing: a helpful tool in art conservation
Kokla, V., Psarrou, A. and Konstantinou, V. 2002. Image processing: a helpful tool in art conservation. in: Van Grieken, R., Janssens, K., Dack, L.V.T. and Meersman, G. (ed.) Art 2002 : 7th International Conference on Non-destructive Testing and Microanalysis for the Diagnostics and Conservation of the Cultural and Environmental Heritage 2-6 June 2002 Congress Centre Elzenveld, Antwerp, Begium: proceedings Antwerp University of Antwerp.

Use of non-destructive methodology in the identification of old inks
Alexopoulou, A., Kokla, V., Psarrou, A. and Konstantinou, V. 2002. Use of non-destructive methodology in the identification of old inks. in: Van Grieken, R., Janssens, K., van't dack, L. and Meersman, G. (ed.) Art 2002: proceedings of the 7th International Conference on Non-Destructive Testing and Microanalysis for Diagnostics and Conservation of Cultural and Environmental Heritage, 2002 Antwerp, Belgium University of Antwerp.

Data driven model acquisition using minimum description length
Walter, M., Psarrou, A. and Gong, S. 2001. Data driven model acquisition using minimum description length. in: Cootes, T. and Taylor, C. (ed.) BMVC: Proceedings of the 12th British Machine Vision Conference BMVA. pp. 673-683

Auto clustering for unsupervised learning of atomic gesture components using minimum description length
Walter, M., Psarrou, A. and Gong, S. 2001. Auto clustering for unsupervised learning of atomic gesture components using minimum description length. in: Proceedings of IEEE ICCV Workshop on Recognition, Analysis, and Tracking of Faces and Gestures in Real-Time Systems, 2001 USA IEEE . pp. 157-162

An extensible movie system interface for information-rich television
Angelopoulou, A., Psarrou, A. and Parapadakis, D. 2001. An extensible movie system interface for information-rich television. in: Graham, P., Maheswaran, M. and Eskicioglu, M.R. (ed.) Proceedings of the International Conference on Internet Computing, IC'2001, Las Vegas, Nevada, USA, June 25-28, 2001 USA CSREA Press.

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