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	Author	Smriti Joshi; Richard Osuala; Carlos Martin-Isla; Victor M.Campello; Carla Sendra-Balcells; Karim Lekadir; Sergio Escalera
	Title	nn-UNet Training on CycleGAN-Translated Images for Cross-modal Domain Adaptation in Biomedical Imaging			Type	Conference Article
	Year	2022	Publication	International MICCAI Brainlesion Workshop	Abbreviated Journal
	Volume	12963	Issue		Pages	540–551
	Keywords	Domain adaptation; Vestibular schwannoma (VS); Deep learning; nn-UNet; CycleGAN
	Abstract	In recent years, deep learning models have considerably advanced the performance of segmentation tasks on Brain Magnetic Resonance Imaging (MRI). However, these models show a considerable performance drop when they are evaluated on unseen data from a different distribution. Since annotation is often a hard and costly task requiring expert supervision, it is necessary to develop ways in which existing models can be adapted to the unseen domains without any additional labelled information. In this work, we explore one such technique which extends the CycleGAN [2] architecture to generate label-preserving data in the target domain. The synthetic target domain data is used to train the nn-UNet [3] framework for the task of multi-label segmentation. The experiments are conducted and evaluated on the dataset [1] provided in the ‘Cross-Modality Domain Adaptation for Medical Image Segmentation’ challenge [23] for segmentation of vestibular schwannoma (VS) tumour and cochlea on contrast enhanced (ceT1) and high resolution (hrT2) MRI scans. In the proposed approach, our model obtains dice scores (DSC) 0.73 and 0.49 for tumour and cochlea respectively on the validation set of the dataset. This indicates the applicability of the proposed technique to real-world problems where data may be obtained by different acquisition protocols as in [1] where hrT2 images are more reliable, safer, and lower-cost alternative to ceT1.
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference	MICCAIW
	Notes	HUPBA; no menciona			Approved	no
	Call Number	Admin @ si @ JOM2022			Serial	3800
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	Author	Yael Tudela; Ana Garcia Rodriguez; Gloria Fernandez Esparrach; Jorge Bernal
	Title	Towards Fine-Grained Polyp Segmentation and Classification			Type	Conference Article
	Year	2023	Publication	Workshop on Clinical Image-Based Procedures	Abbreviated Journal
	Volume	14242	Issue		Pages	32-42
	Keywords	Medical image segmentation; Colorectal Cancer; Vision Transformer; Classification
	Abstract	Colorectal cancer is one of the main causes of cancer death worldwide. Colonoscopy is the gold standard screening tool as it allows lesion detection and removal during the same procedure. During the last decades, several efforts have been made to develop CAD systems to assist clinicians in lesion detection and classification. Regarding the latter, and in order to be used in the exploration room as part of resect and discard or leave-in-situ strategies, these systems must identify correctly all different lesion types. This is a challenging task, as the data used to train these systems presents great inter-class similarity, high class imbalance, and low representation of clinically relevant histology classes such as serrated sessile adenomas. In this paper, a new polyp segmentation and classification method, Swin-Expand, is introduced. Based on Swin-Transformer, it uses a simple and lightweight decoder. The performance of this method has been assessed on a novel dataset, comprising 1126 high-definition images representing the three main histological classes. Results show a clear improvement in both segmentation and classification performance, also achieving competitive results when tested in public datasets. These results confirm that both the method and the data are important to obtain more accurate polyp representations.
	Address	Vancouver; October 2023
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference	MICCAIW
	Notes	ISE			Approved	no
	Call Number	Admin @ si @ TGF2023			Serial	3837
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	Author	Panagiota Spyridonos; Fernando Vilariño; Jordi Vitria; Fernando Azpiroz; Petia Radeva
	Title	Anisotropic Feature Extraction from Endoluminal Images for Detection of Intestinal Contractions			Type	Book Chapter
	Year	2006	Publication	9th International Conference on Medical Image Computing and Computer–Assisted Intervention	Abbreviated Journal
	Volume	4191	Issue		Pages	161–168
	Keywords
	Abstract	Wireless endoscopy is a very recent and at the same time unique technique allowing to visualize and study the occurrence of con- tractions and to analyze the intestine motility. Feature extraction is es- sential for getting efficient patterns to detect contractions in wireless video endoscopy of small intestine. We propose a novel method based on anisotropic image filtering and efficient statistical classification of con- traction features. In particular, we apply the image gradient tensor for mining informative skeletons from the original image and a sequence of descriptors for capturing the characteristic pattern of contractions. Fea- tures extracted from the endoluminal images were evaluated in terms of their discriminatory ability in correct classifying images as either belong- ing to contractions or not. Classification was performed by means of a support vector machine classifier with a radial basis function kernel. Our classification rates gave sensitivity of the order of 90.84% and specificity of the order of 94.43% respectively. These preliminary results highlight the high efficiency of the selected descriptors and support the feasibility of the proposed method in assisting the automatic detection and analysis of contractions.
	Address	Copenhagen (Denmark)
	Corporate Author				Thesis
	Publisher	Springer Verlag	Place of Publication	Berlin Heidelberg	Editor	R. Larsen, M. Nielsen, and J. Sporring
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area	800	Expedition		Conference	MICCAI06
	Notes	MV;OR;MILAB;SIAI			Approved	no
	Call Number	BCNPCL @ bcnpcl @ SVV2006; IAM @ iam @ SVV2006			Serial	725
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	Author	Carlo Gatta; Oriol Pujol; Oriol Rodriguez-Leor; J. Mauri; Petia Radeva
	Title	Robust Image-based IVUS Pullbacks Gating			Type	Book Chapter
	Year	2008	Publication	Proceedings 11th International ConferenceMedical Image Computing and Computer–Assisted Intervention	Abbreviated Journal
	Volume	5242	Issue		Pages	518–525
	Keywords
	Abstract
	Address	NY (USA)
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference	MICCAI
	Notes	MILAB;HuPBA			Approved	no
	Call Number	BCNPCL @ bcnpcl @ GPR2008a			Serial	1037
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	Author	Carlo Gatta; Oriol Pujol; Oriol Rodriguez-Leor; Josefina Mauri; Petia Radeva
	Title	Improved Rigid Registration of Vessel Structures using the Fast Radial Symmetry Transform			Type	Conference Article
	Year	2008	Publication	Computer Vision for Intravascular Imaging CVII’08 Workshop Medical Image Computing and Computer–Assisted Intervention , 11th International Conference	Abbreviated Journal
	Volume		Issue		Pages	128–136
	Keywords
	Abstract
	Address	NY (USA)
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference	MICCAI
	Notes	MILAB;HUPBA			Approved	no
	Call Number	BCNPCL @ bcnpcl @ GPR2008b			Serial	1038
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	Author	Francesco Ciompi; Oriol Pujol; E Fernandez-Nofrerias; J. Mauri; Petia Radeva
	Title	ECOC Random Fields for Lumen Segmentation in Radial Artery IVUS Sequences			Type	Conference Article
	Year	2009	Publication	12th International Conference on Medical Image and Computer Assisted Intervention	Abbreviated Journal
	Volume	5762	Issue	II	Pages
	Keywords
	Abstract	The measure of lumen volume on radial arteries can be used to evaluate the vessel response to different vasodilators. In this paper, we present a framework for automatic lumen segmentation in longitudinal cut images of radial artery from Intravascular ultrasound sequences. The segmentation is tackled as a classification problem where the contextual information is exploited by means of Conditional Random Fields (CRFs). A multi-class classification framework is proposed, and inference is achieved by combining binary CRFs according to the Error-Correcting-Output-Code technique. The results are validated against manually segmented sequences. Finally, the method is compared with other state-of-the-art classifiers.
	Address	London, UK
	Corporate Author				Thesis
	Publisher	Springer Berlin Heidelberg	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN	0302-9743	ISBN	978-3-642-04270-6	Medium
	Area		Expedition		Conference	MICCAI
	Notes	MILAB;HuPBA			Approved	no
	Call Number	BCNPCL @ bcnpcl @ CPF2009			Serial	1228
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	Author	Carlo Gatta; Simone Balocco; Francesco Ciompi; R. Hemetsberger; Oriol Rodriguez-Leor; Petia Radeva
	Title	Real-time gating of IVUS sequences based on motion blur analysis: Method and quantitative validation			Type	Conference Article
	Year	2010	Publication	13th international conference on Medical image computing and computer-assisted intervention	Abbreviated Journal
	Volume	II	Issue		Pages	59-67
	Keywords
	Abstract	Intravascular Ultrasound (IVUS) is an image-guiding technique for cardiovascular diagnostic, providing cross-sectional images of vessels. During the acquisition, the catheter is pulled back (pullback) at a constant speed in order to acquire spatially subsequent images of the artery. However, during this procedure, the heart twist produces a swinging fluctuation of the probe position along the vessel axis. In this paper we propose a real-time gating algorithm based on the analysis of motion blur variations during the IVUS sequence. Quantitative tests performed on an in-vitro ground truth data base shown that our method is superior to state of the art algorithms both in computational speed and accuracy.
	Address
	Corporate Author				Thesis
	Publisher	Springer-Verlag Berlin	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference	MICCAI
	Notes	MILAB			Approved	no
	Call Number	BCNPCL @ bcnpcl @ GBC2010			Serial	1447
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	Author	Francesco Ciompi; Oriol Pujol; Carlo Gatta; Xavier Carrillo; Josepa Mauri; Petia Radeva
	Title	A Holistic Approach for the Detection of Media-Adventitia Border in IVUS			Type	Conference Article
	Year	2011	Publication	14th International Conference on Medical Image Computing and Computer Assisted Intervention	Abbreviated Journal
	Volume	6893	Issue		Pages	401-408
	Keywords
	Abstract	In this paper we present a methodology for the automatic detection of media-adventitia border (MAb) in Intravascular Ultrasound. A robust computation of the MAb is achieved through a holistic approach where the position of the MAb with respect to other tissues of the vessel is used. A learned quality measure assures that the resulting MAb is optimal with respect to all other tissues. The mean distance error computed through a set of 140 images is 0.2164 (±0.1326) mm.
	Address	Toronto, Canada
	Corporate Author				Thesis
	Publisher	Springer Berlin Heidelberg	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN	0302-9743	ISBN	978-3-642-23625-9	Medium
	Area		Expedition		Conference	MICCAI
	Notes	MILAB;HuPBA			Approved	no
	Call Number	Admin @ si @ CPG2011			Serial	1739
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	Author	Antonio Hernandez; Carlo Gatta; Sergio Escalera; Laura Igual; Victoria Martin Yuste; Petia Radeva
	Title	Accurate and Robust Fully-Automatic QCA: Method and Numerical Validation			Type	Conference Article
	Year	2011	Publication	14th International Conference on Medical Image Computing and Computer Assisted Intervention	Abbreviated Journal
	Volume	14	Issue	3	Pages	496-503
	Keywords
	Abstract	The Quantitative Coronary Angiography (QCA) is a methodology used to evaluate the arterial diseases and, in particular, the degree of stenosis. In this paper we propose AQCA, a fully automatic method for vessel segmentation based on graph cut theory. Vesselness, geodesic paths and a new multi-scale edgeness map are used to compute a globally optimal artery segmentation. We evaluate the method performance in a rigorous numerical way on two datasets. The method can detect an artery with precision 92.9 +/- 5% and sensitivity 94.2 +/- 6%. The average absolute distance error between detected and ground truth centerline is 1.13 +/- 0.11 pixels (about 0.27 +/- 0.025 mm) and the absolute relative error in the vessel caliber estimation is 2.93% with almost no bias. Moreover, the method can discriminate between arteries and catheter with an accuracy of 96.4%.
	Address	Toronto, Canada
	Corporate Author				Thesis
	Publisher	Springer	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN	978-3-642-23625-9	Medium
	Area		Expedition		Conference	MICCAI
	Notes	MILAB;HuPBA			Approved	no
	Call Number	Admin @ si @ HGE2011			Serial	1769
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	Author	Sergio Vera; Miguel Angel Gonzalez Ballester; Debora Gil
	Title	Volumetric Anatomical Parameterization and Meshing for Inter-patient Liver Coordinate System Deffinition			Type	Conference Article
	Year	2013	Publication	16th International Conference on Medical Image Computing and Computer Assisted Intervention	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract
	Address	Nagoya; Japan; September 2013
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference	MICCAI
	Notes	IAM			Approved	no
	Call Number	Admin @ si @ VGG2013			Serial	2301
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	Author	Francesco Ciompi; Simone Balocco; Carles Caus; Josepa Mauri; Petia Radeva
	Title	Stent shape estimation through a comprehensive interpretation of intravascular ultrasound images			Type	Conference Article
	Year	2013	Publication	16th International Conference on Medical Image Computing and Computer Assisted Intervention	Abbreviated Journal
	Volume	8150	Issue	2	Pages	345-352
	Keywords
	Abstract	We present a method for automatic struts detection and stent shape estimation in cross-sectional intravascular ultrasound images. A stent shape is first estimated through a comprehensive interpretation of the vessel morphology, performed using a supervised context-aware multi-class classification scheme. Then, the successive strut identification exploits both local appearance and the defined stent shape. The method is tested on 589 images obtained from 80 patients, achieving a F-measure of 74.1% and an averaged distance between manual and automatic struts of 0.10 mm.
	Address	Nagoya; Japan; September 2013
	Corporate Author				Thesis
	Publisher	Springer Berlin Heidelberg	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN	0302-9743	ISBN	978-3-642-40762-8	Medium
	Area		Expedition		Conference	MICCAI
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @ CBC2013			Serial	2258
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	Author	Marina Alberti; Simone Balocco; Xavier Carrillo; Josepa Mauri; Petia Radeva
	Title	Automatic Non-Rigid Temporal Alignment of IVUS Sequences			Type	Conference Article
	Year	2012	Publication	15th International Conference on Medical Image Computing and Computer Assisted Intervention	Abbreviated Journal
	Volume	1	Issue		Pages	642-650
	Keywords
	Abstract	Clinical studies on atherosclerosis regression/progression performed by Intravascular Ultrasound analysis require the alignment of pullbacks of the same patient before and after clinical interventions. In this paper, a methodology for the automatic alignment of IVUS sequences based on the Dynamic Time Warping technique is proposed. The method is adapted to the specific IVUS alignment task by applying the non-rigid alignment technique to multidimensional morphological signals, and by introducing a sliding window approach together with a regularization term. To show the effectiveness of our method, an extensive validation is performed both on synthetic data and in-vivo IVUS sequences. The proposed method is robust to stent deployment and post dilation surgery and reaches an alignment error of approximately 0.7 mm for in-vivo data, which is comparable to the inter-observer variability.
	Address	Nice, France
	Corporate Author				Thesis
	Publisher	Springer-Verlag Berlin, Heidelberg	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN	978-3-642-33414-6	Medium
	Area		Expedition		Conference	MICCAI
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @ ABC2012			Serial	2168
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	Author	Md. Mostafa Kamal Sarker; Hatem A. Rashwan; Farhan Akram; Syeda Furruka Banu; Adel Saleh; Vivek Kumar Singh; Forhad U. H. Chowdhury; Saddam Abdulwahab; Santiago Romani; Petia Radeva; Domenec Puig
	Title	SLSDeep: Skin Lesion Segmentation Based on Dilated Residual and Pyramid Pooling Networks.			Type	Conference Article
	Year	2018	Publication	21st International Conference on Medical Image Computing & Computer Assisted Intervention	Abbreviated Journal
	Volume	2	Issue		Pages	21-29
	Keywords
	Abstract	Skin lesion segmentation (SLS) in dermoscopic images is a crucial task for automated diagnosis of melanoma. In this paper, we present a robust deep learning SLS model, so-called SLSDeep, which is represented as an encoder-decoder network. The encoder network is constructed by dilated residual layers, in turn, a pyramid pooling network followed by three convolution layers is used for the decoder. Unlike the traditional methods employing a cross-entropy loss, we investigated a loss function by combining both Negative Log Likelihood (NLL) and End Point Error (EPE) to accurately segment the melanoma regions with sharp boundaries. The robustness of the proposed model was evaluated on two public databases: ISBI 2016 and 2017 for skin lesion analysis towards melanoma detection challenge. The proposed model outperforms the state-of-the-art methods in terms of segmentation accuracy. Moreover, it is capable to segment more than 100 images of size 384x384 per second on a recent GPU.
	Address	Granada; Espanya; September 2018
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference	MICCAI
	Notes	MILAB; no proj			Approved	no
	Call Number	Admin @ si @ SRA2018			Serial	3112
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	Author	Jorge Bernal; F. Javier Sanchez; Fernando Vilariño
	Title	Current Challenges on Polyp Detection in Colonoscopy Videos: From Region Segmentation to Region Classification. a Pattern Recognition-based Approach.ased Approach			Type	Conference Article
	Year	2011	Publication	2nd International Workshop on Medical Image Analysis and Descriptionfor Diagnosis Systems	Abbreviated Journal
	Volume		Issue		Pages	62-71
	Keywords	Medical Imaging, Colonoscopy, Pattern Recognition, Segmentation, Polyp Detection, Region Description, Machine Learning, Real-time.
	Abstract	In this paper we present our approach on real-time polyp detection in colonoscopy videos. Our method consists of three stages: Image Segmentation, Region Description and Image Classification. Taking into account the constraints of our project, we introduce our segmentation system that is based on the model of appearance of the polyp that we have defined after observing real videos from colonoscopy processes. The output of this stage will ideally be a low number of regions of which one of them should cover the whole polyp region (if there is one in the image). This regions will be described in terms of features and, as a result of a machine learning schema, classified based on the values that they have for the several features that we will use on their description. Although we are still on the early stages of the project, we present some preliminary segmentation results that indicates that we are going in a good direction.
	Address	Rome, Italy
	Corporate Author				Thesis
	Publisher	SciTePress	Place of Publication		Editor	Djemal, Khalifa
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area	800	Expedition		Conference	MIAD
	Notes	MV;SIAI			Approved	no
	Call Number	IAM @ iam @ BSV2011a			Serial	1695
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	Author	Mireia Sole; Joan Blanco; Debora Gil; G. Fonseka; Richard Frodsham; Oliver Valero; Francesca Vidal; Zaida Sarrate
	Title	Is there a pattern of Chromosome territoriality along mice spermatogenesis?			Type	Conference Article
	Year	2017	Publication	3rd Spanish MeioNet Meeting Abstract Book	Abbreviated Journal
	Volume		Issue		Pages	55-56
	Keywords
	Abstract
	Address	Miraflores de la Sierra; Madrid; June 2017
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference	MEIONET
	Notes	IAM; 600.096; 600.145			Approved	no
	Call Number	Admin @ si @			Serial	2958
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