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	Author	Rosa Maria Ortiz; Debora Gil; Elisa Minchole; Marta Diez-Ferrer; Noelia Cubero de Frutos
	Title	Classification of Confolcal Endomicroscopy Patterns for Diagnosis of Lung Cancer			Type	Conference Article
	Year	2017	Publication	18th World Conference on Lung Cancer	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	Confocal Laser Endomicroscopy (CLE) is an emerging imaging technique that allows the in-vivo acquisition of cell patterns of potentially malignant lesions. Such patterns could discriminate between inflammatory and neoplastic lesions and, thus, serve as a first in-vivo biopsy to discard cases that do not actually require a cell biopsy. The goal of this work is to explore whether CLE images obtained during videobronchoscopy contain enough visual information to discriminate between benign and malign peripheral lesions for lung cancer diagnosis. To do so, we have performed a pilot comparative study with 12 patients (6 adenocarcinoma and 6 benign-inflammatory) using 2 different methods for CLE pattern analysis: visual analysis by 3 experts and a novel methodology that uses graph methods to find patterns in pre-trained feature spaces. Our preliminary results indicate that although visual analysis can only achieve a 60.2% of accuracy, the accuracy of the proposed unsupervised image pattern classification raises to 84.6%. We conclude that CLE images visual information allow in-vivo detection of neoplastic lesions and graph structural analysis applied to deep-learning feature spaces can achieve competitive results.
	Address	Yokohama; Japan; October 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	IASLC WCLC
	Notes	IAM; 600.096; 600.075; 600.145			Approved	no
	Call Number	Admin @ si @ OGM2017			Serial	3044
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	Author	Esmitt Ramirez; Carles Sanchez; Agnes Borras; Marta Diez-Ferrer; Antoni Rosell; Debora Gil
	Title	Image-Based Bronchial Anatomy Codification for Biopsy Guiding in Video Bronchoscopy			Type	Conference Article
	Year	2018	Publication	OR 2.0 Context-Aware Operating Theaters, Computer Assisted Robotic Endoscopy, Clinical Image-Based Procedures, and Skin Image Analysis	Abbreviated Journal
	Volume	11041	Issue		Pages
	Keywords	Biopsy guiding; Bronchoscopy; Lung biopsy; Intervention guiding; Airway codification
	Abstract	Bronchoscopy examinations allow biopsy of pulmonary nodules with minimum risk for the patient. Even for experienced bronchoscopists, it is difficult to guide the bronchoscope to most distal lesions and obtain an accurate diagnosis. This paper presents an image-based codification of the bronchial anatomy for bronchoscopy biopsy guiding. The 3D anatomy of each patient is codified as a binary tree with nodes representing bronchial levels and edges labeled using their position on images projecting the 3D anatomy from a set of branching points. The paths from the root to leaves provide a codification of navigation routes with spatially consistent labels according to the anatomy observes in video bronchoscopy explorations. We evaluate our labeling approach as a guiding system in terms of the number of bronchial levels correctly codified, also in the number of labels-based instructions correctly supplied, using generalized mixed models and computer-generated data. Results obtained for three independent observers prove the consistency and reproducibility of our guiding system. We trust that our codification based on viewer’s projection might be used as a foundation for the navigation process in Virtual Bronchoscopy systems.
	Address	Granada; September 2018
	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	IAM; 600.096; 600.075; 601.323; 600.145			Approved	no
	Call Number	Admin @ si @ RSB2018b			Serial	3137
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	Author	Esmitt Ramirez; Carles Sanchez; Agnes Borras; Marta Diez-Ferrer; Antoni Rosell; Debora Gil
	Title	BronchoX: bronchoscopy exploration software for biopsy intervention planning			Type	Journal
	Year	2018	Publication	Healthcare Technology Letters	Abbreviated Journal	HTL
	Volume	5	Issue	5	Pages	177–182
	Keywords
	Abstract	Virtual bronchoscopy (VB) is a non-invasive exploration tool for intervention planning and navigation of possible pulmonary lesions (PLs). A VB software involves the location of a PL and the calculation of a route, starting from the trachea, to reach it. The selection of a VB software might be a complex process, and there is no consensus in the community of medical software developers in which is the best-suited system to use or framework to choose. The authors present Bronchoscopy Exploration (BronchoX), a VB software to plan biopsy interventions that generate physician-readable instructions to reach the PLs. The authors’ solution is open source, multiplatform, and extensible for future functionalities, designed by their multidisciplinary research and development group. BronchoX is a compound of different algorithms for segmentation, visualisation, and navigation of the respiratory tract. Performed results are a focus on the test the effectiveness of their proposal as an exploration software, also to measure its accuracy as a guiding system to reach PLs. Then, 40 different virtual planning paths were created to guide physicians until distal bronchioles. These results provide a functional software for BronchoX and demonstrate how following simple instructions is possible to reach distal lesions from the trachea.
	Address
	Corporate Author	rank (SJR)			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
	Notes	IAM; 600.096; 600.075; 601.323; 601.337; 600.145			Approved	no
	Call Number	Admin @ si @ RSB2018a			Serial	3132
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	Author	Mireia Sole; Joan Blanco; Debora Gil; Oliver Valero; G. Fonseka; M. Lawrie; Francesca Vidal; Zaida Sarrate
	Title	Chromosome Territories in Mice Spermatogenesis: A new three-dimensional methodology of study			Type	Conference Article
	Year	2017	Publication	11th European CytoGenesis Conference	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract
	Address	Florencia; Italia; July 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	ECA
	Notes	IAM; 600.096; 600.145			Approved	no
	Call Number	Admin @ si @ SBG2017a			Serial	2936
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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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	Author	Mireia Sole; Joan Blanco; Debora Gil; G. Fonseka; Richard Frodsham; Francesca Vidal; Zaida Sarrate
	Title	Noves perspectives en l estudi de la territorialitat cromosomica de cel·lules germinals masculines: estudis tridimensionals			Type	Journal
	Year	2017	Publication	Biologia de la Reproduccio	Abbreviated Journal	JBR
	Volume	15	Issue		Pages	73-78
	Keywords
	Abstract	In somatic cells, chromosomes occupy specific nuclear regions called chromosome territories which are involved in the maintenance and regulation of the genome. Preliminary data in male germ cells also suggest the importance of chromosome territoriality in cell functionality. Nevertheless, the specific characteristics of testicular tissue (presence of different cell types with different morphological characteristics, in different stages of development and with different ploidy) makes difficult to achieve conclusive results. In this study we have developed a methodology to approach the threedimensional study of all chromosome territories in male germ cells from C57BL/6J mice (Mus musculus). The method includes the following steps: i) Optimized cell fixation to obtain an optimal preservation of the three-dimensionality cell morphology, ii) Chromosome identification by FISH (Chromoprobe Multiprobe® OctoChrome™ Murine System; Cytocell) and confocal microscopy (TCS-SP5, Leica Microsystems), iii) Cell type identification by immunofluorescence iv) Image analysis using Matlab scripts, v) Numerical data extraction related to chromosome features, chromosome radial position and chromosome relative position. This methodology allows the unequivocally identification and the analysis of the chromosome territories of all spermatogenic stages. Results will provide information about the features that determine chromosomal position, preferred associations between chromosomes, and the relationship between chromosome positioning and genome regulation.
	Address
	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	978-84-697-3767-5	Medium
	Area		Expedition		Conference
	Notes	IAM; 600.096; 600.145			Approved	no
	Call Number	Admin @ si @ SBG2017c			Serial	2961
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	Author	Mireia Sole; Joan Blanco; Debora Gil; G. Fonseka; Richard Frodsham; Oliver Valero; Francesca Vidal; Zaida Sarrate
	Title	Análisis 3d de la territorialidad cromosómica en células espermatogénicas: explorando la infertilidad desde un nuevo prisma			Type	Journal
	Year	2017	Publication	Revista Asociación para el Estudio de la Biología de la Reproducción	Abbreviated Journal	ASEBIR
	Volume	22	Issue	2	Pages	105
	Keywords
	Abstract
	Address
	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
	Notes	IAM; 600.096; 600.145			Approved	no
	Call Number	Admin @ si @ SBG2017d			Serial	3042
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	Author	Debora Gil; Ruth Aris; Agnes Borras; Esmitt Ramirez; Rafael Sebastian; Mariano Vazquez
	Title	Influence of fiber connectivity in simulations of cardiac biomechanics			Type	Journal Article
	Year	2019	Publication	International Journal of Computer Assisted Radiology and Surgery	Abbreviated Journal	IJCAR
	Volume	14	Issue	1	Pages	63–72
	Keywords	Cardiac electromechanical simulations; Diffusion tensor imaging; Fiber connectivity
	Abstract	PURPOSE: Personalized computational simulations of the heart could open up new improved approaches to diagnosis and surgery assistance systems. While it is fully recognized that myocardial fiber orientation is central for the construction of realistic computational models of cardiac electromechanics, the role of its overall architecture and connectivity remains unclear. Morphological studies show that the distribution of cardiac muscular fibers at the basal ring connects epicardium and endocardium. However, computational models simplify their distribution and disregard the basal loop. This work explores the influence in computational simulations of fiber distribution at different short-axis cuts. METHODS: We have used a highly parallelized computational solver to test different fiber models of ventricular muscular connectivity. We have considered two rule-based mathematical models and an own-designed method preserving basal connectivity as observed in experimental data. Simulated cardiac functional scores (rotation, torsion and longitudinal shortening) were compared to experimental healthy ranges using generalized models (rotation) and Mahalanobis distances (shortening, torsion). RESULTS: The probability of rotation was significantly lower for ruled-based models [95% CI (0.13, 0.20)] in comparison with experimental data [95% CI (0.23, 0.31)]. The Mahalanobis distance for experimental data was in the edge of the region enclosing 99% of the healthy population. CONCLUSIONS: Cardiac electromechanical simulations of the heart with fibers extracted from experimental data produce functional scores closer to healthy ranges than rule-based models disregarding architecture connectivity.
	Address
	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
	Notes	IAM; 600.096; 601.323; 600.139; 600.145			Approved	no
	Call Number	Admin @ si @ GAB2019a			Serial	3133
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	Author	Debora Gil; Aura Hernandez-Sabate; Julien Enconniere; Saryani Asmayawati; Pau Folch; Juan Borrego-Carazo; Miquel Angel Piera
	Title	E-Pilots: A System to Predict Hard Landing During the Approach Phase of Commercial Flights			Type	Journal Article
	Year	2022	Publication	IEEE Access	Abbreviated Journal	ACCESS
	Volume	10	Issue		Pages	7489-7503
	Keywords
	Abstract	More than half of all commercial aircraft operation accidents could have been prevented by executing a go-around. Making timely decision to execute a go-around manoeuvre can potentially reduce overall aviation industry accident rate. In this paper, we describe a cockpit-deployable machine learning system to support flight crew go-around decision-making based on the prediction of a hard landing event. This work presents a hybrid approach for hard landing prediction that uses features modelling temporal dependencies of aircraft variables as inputs to a neural network. Based on a large dataset of 58177 commercial flights, the results show that our approach has 85% of average sensitivity with 74% of average specificity at the go-around point. It follows that our approach is a cockpit-deployable recommendation system that outperforms existing approaches.
	Address
	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
	Notes	IAM; 600.139; 600.118; 600.145			Approved	no
	Call Number	Admin @ si @ GHE2022			Serial	3721
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	Author	Jose Elias Yauri; Aura Hernandez-Sabate; Pau Folch; Debora Gil
	Title	Mental Workload Detection Based on EEG Analysis			Type	Conference Article
	Year	2021	Publication	Artificial Intelligent Research and Development. Proceedings 23rd International Conference of the Catalan Association for Artificial Intelligence.	Abbreviated Journal
	Volume	339	Issue		Pages	268-277
	Keywords	Cognitive states; Mental workload; EEG analysis; Neural Networks.
	Abstract	The study of mental workload becomes essential for human work efficiency, health conditions and to avoid accidents, since workload compromises both performance and awareness. Although workload has been widely studied using several physiological measures, minimising the sensor network as much as possible remains both a challenge and a requirement. Electroencephalogram (EEG) signals have shown a high correlation to specific cognitive and mental states like workload. However, there is not enough evidence in the literature to validate how well models generalize in case of new subjects performing tasks of a workload similar to the ones included during model’s training. In this paper we propose a binary neural network to classify EEG features across different mental workloads. Two workloads, low and medium, are induced using two variants of the N-Back Test. The proposed model was validated in a dataset collected from 16 subjects and shown a high level of generalization capability: model reported an average recall of 81.81% in a leave-one-out subject evaluation.
	Address	Virtual; October 20-22 2021
	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	CCIA
	Notes	IAM; 600.139; 600.118; 600.145			Approved	no
	Call Number	Admin @ si @			Serial	3723
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	Author	Debora Gil; Antonio Esteban Lansaque; Agnes Borras; Carles Sanchez
	Title	Enhancing virtual bronchoscopy with intra-operative data using a multi-objective GAN			Type	Journal Article
	Year	2019	Publication	International Journal of Computer Assisted Radiology and Surgery	Abbreviated Journal	IJCAR
	Volume	7	Issue	1	Pages
	Keywords
	Abstract	This manuscript has been withdrawn by bioRxiv due to upload of an incorrect version of the manuscript by the authors. Therefore, this manuscript should not be cited as reference for this project.
	Address
	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
	Notes	IAM; 600.139; 600.145			Approved	no
	Call Number	Admin @ si @ GEB2019			Serial	3307
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	Author	Debora Gil; Carles Sanchez; Agnes Borras; Marta Diez-Ferrer; Antoni Rosell
	Title	Segmentation of Distal Airways using Structural Analysis			Type	Journal Article
	Year	2019	Publication	PloS one	Abbreviated Journal	Plos
	Volume	14	Issue	12	Pages
	Keywords
	Abstract	Segmentation of airways in Computed Tomography (CT) scans is a must for accurate support of diagnosis and intervention of many pulmonary disorders. In particular, lung cancer diagnosis would benefit from segmentations reaching most distal airways. We present a method that combines descriptors of bronchi local appearance and graph global structural analysis to fine-tune thresholds on the descriptors adapted for each bronchial level. We have compared our method to the top performers of the EXACT09 challenge and to a commercial software for biopsy planning evaluated in an own-collected data-base of high resolution CT scans acquired under different breathing conditions. Results on EXACT09 data show that our method provides a high leakage reduction with minimum loss in airway detection. Results on our data-base show the reliability across varying breathing conditions and a competitive performance for biopsy planning compared to a commercial solution.
	Address
	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
	Notes	IAM; 600.139; 600.145			Approved	no
	Call Number	Admin @ si @ GSB2019			Serial	3357
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	Author	Marta Ligero; Guillermo Torres; Carles Sanchez; Katerine Diaz; Raquel Perez; Debora Gil
	Title	Selection of Radiomics Features based on their Reproducibility			Type	Conference Article
	Year	2019	Publication	41st Annual International Conference of the IEEE Engineering in Medicine and Biology Society	Abbreviated Journal
	Volume		Issue		Pages	403-408
	Keywords
	Abstract	Dimensionality reduction is key to alleviate machine learning artifacts in clinical applications with Small Sample Size (SSS) unbalanced datasets. Existing methods rely on either the probabilistic distribution of training data or the discriminant power of the reduced space, disregarding the impact of repeatability and uncertainty in features.In the present study is proposed the use of reproducibility of radiomics features to select features with high inter-class correlation coefficient (ICC). The reproducibility includes the variability introduced in the image acquisition, like medical scans acquisition parameters and convolution kernels, that affects intensity-based features and tumor annotations made by physicians, that influences morphological descriptors of the lesion.For the reproducibility of radiomics features three studies were conducted on cases collected at Vall Hebron Oncology Institute (VHIO) on responders to oncology treatment. The studies focused on the variability due to the convolution kernel, image acquisition parameters, and the inter-observer lesion identification. The features selected were those features with a ICC higher than 0.7 in the three studies.The selected features based on reproducibility were evaluated for lesion malignancy classification using a different database. Results show better performance compared to several state-of-the-art methods including Principal Component Analysis (PCA), Kernel Discriminant Analysis via QR decomposition (KDAQR), LASSO, and an own built Convolutional Neural Network.
	Address	Berlin; Alemanya; July 2019
	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	EMBC
	Notes	IAM; 600.139; 600.145			Approved	no
	Call Number	Admin @ si @ LTS2019			Serial	3358
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	Author	Debora Gil; Antoni Rosell
	Title	Advances in Artificial Intelligence – How Lung Cancer CT Screening Will Progress?			Type	Abstract
	Year	2019	Publication	World Lung Cancer Conference	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	Invited speaker
	Address	Barcelona; September 2019
	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	IASLC WCLC
	Notes	IAM; 600.139; 600.145			Approved	no
	Call Number	Admin @ si @ GiR2019			Serial	3361
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	Author	Debora Gil; Antonio Esteban Lansaque; Agnes Borras; Esmitt Ramirez; Carles Sanchez
	Title	Intraoperative Extraction of Airways Anatomy in VideoBronchoscopy			Type	Journal Article
	Year	2020	Publication	IEEE Access	Abbreviated Journal	ACCESS
	Volume	8	Issue		Pages	159696 - 159704
	Keywords
	Abstract	A main bottleneck in bronchoscopic biopsy sampling is to efficiently reach the lesion navigating across bronchial levels. Any guidance system should be able to localize the scope position during the intervention with minimal costs and alteration of clinical protocols. With the final goal of an affordable image-based guidance, this work presents a novel strategy to extract and codify the anatomical structure of bronchi, as well as, the scope navigation path from videobronchoscopy. Experiments using interventional data show that our method accurately identifies the bronchial structure. Meanwhile, experiments using simulated data verify that the extracted navigation path matches the 3D route.
	Address
	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
	Notes	IAM; 600.139; 600.145			Approved	no
	Call Number	Admin @ si @ GEB2020			Serial	3467
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