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	Author	Joan M. Nuñez; Jorge Bernal; F. Javier Sanchez; Fernando Vilariño
	Title	Growing Algorithm for Intersection Detection (GRAID) in branching patterns			Type	Journal Article
	Year	2015	Publication	Machine Vision and Applications	Abbreviated Journal	MVAP
	Volume	26	Issue	2	Pages	387-400
	Keywords	Bifurcation ; Crossroad; Intersection ;Retina ; Vessel
	Abstract	Analysis of branching structures represents a very important task in fields such as medical diagnosis, road detection or biometrics. Detecting intersection landmarks Becomes crucial when capturing the structure of a branching pattern. We present a very simple geometrical model to describe intersections in branching structures based on two conditions: Bounded Tangency condition (BT) and Shortest Branch (SB) condition. The proposed model precisely sets a geometrical characterization of intersections and allows us to introduce a new unsupervised operator for intersection extraction. We propose an implementation that handles the consequences of digital domain operation that,unlike existing approaches, is not restricted to a particular scale and does not require the computation of the thinned pattern. The new proposal, as well as other existing approaches in the bibliography, are evaluated in a common framework for the first time. The performance analysis is based on two manually segmented image data sets: DRIVE retinal image database and COLON-VESSEL data set, a newly created data set of vascular content in colonoscopy frames. We have created an intersection landmark ground truth for each data set besides comparing our method in the only existing ground truth. Quantitative results confirm that we are able to outperform state-of-the-art performancelevels with the advantage that neither training nor parameter tuning is needed.
	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	;SIAI			Approved	no
	Call Number	Admin @ si @MBS2015			Serial	2777
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	Author	Gloria Fernandez Esparrach; Jorge Bernal; Maria Lopez Ceron; Henry Cordova; Cristina Sanchez Montes; Cristina Rodriguez de Miguel; F. Javier Sanchez
	Title	Exploring the clinical potential of an automatic colonic polyp detection method based on the creation of energy maps			Type	Journal Article
	Year	2016	Publication	Endoscopy	Abbreviated Journal	END
	Volume	48	Issue	9	Pages	837-842
	Keywords
	Abstract	Background and aims: Polyp miss-rate is a drawback of colonoscopy that increases significantly in small polyps. We explored the efficacy of an automatic computer vision method for polyp detection. Methods: Our method relies on a model that defines polyp boundaries as valleys of image intensity. Valley information is integrated into energy maps which represent the likelihood of polyp presence. Results: In 24 videos containing polyps from routine colonoscopies, all polyps were detected in at least one frame. Mean values of the maximum of energy map were higher in frames with polyps than without (p<0.001). Performance improved in high quality frames (AUC= 0.79, 95%CI: 0.70-0.87 vs 0.75, 95%CI: 0.66-0.83). Using 3.75 as maximum threshold value, sensitivity and specificity for detection of polyps were 70.4% (95%CI: 60.3-80.8) and 72.4% (95%CI: 61.6-84.6), respectively. Conclusion: Energy maps showed a good performance for colonic polyp detection. This indicates a potential applicability in clinical practice.
	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	MV;			Approved	no
	Call Number	Admin @ si @FBL2016			Serial	2778
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	Author	Gloria Fernandez Esparrach; Jorge Bernal; Cristina Rodriguez de Miguel; Debora Gil; Fernando Vilariño; Henry Cordova; Cristina Sanchez Montes; Isis Ara
	Title	Utilidad de la visión por computador para la localización de pólipos pequeños y planos			Type	Conference Article
	Year	2016	Publication	XIX Reunión Nacional de la Asociación Española de Gastroenterología, Gastroenterology Hepatology	Abbreviated Journal
	Volume	39	Issue	2	Pages	94
	Keywords
	Abstract
	Address	Madrid (Spain)
	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	AEGASTRO
	Notes	MV; IAM; 600.097;SIAI			Approved	no
	Call Number	Admin @ si @FBR2016			Serial	2779
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	Author	Jordina Torrents-Barrena; Aida Valls; Petia Radeva; Meritxell Arenas; Domenec Puig
	Title	Automatic Recognition of Molecular Subtypes of Breast Cancer in X-Ray images using Segmentation-based Fractal Texture Analysis			Type	Book Chapter
	Year	2015	Publication	Artificial Intelligence Research and Development	Abbreviated Journal
	Volume	277	Issue		Pages	247 - 256
	Keywords
	Abstract	Breast cancer disease has recently been classified into four subtypes regarding the molecular properties of the affected tumor region. For each patient, an accurate diagnosis of the specific type is vital to decide the most appropriate therapy in order to enhance life prospects. Nowadays, advanced therapeutic diagnosis research is focused on gene selection methods, which are not robust enough. Hence, we hypothesize that computer vision algorithms can offer benefits to address the problem of discriminating among them through X-Ray images. In this paper, we propose a novel approach driven by texture feature descriptors and machine learning techniques. First, we segment the tumour part through an active contour technique and then, we perform a complete fractal analysis to collect qualitative information of the region of interest in the feature extraction stage. Finally, several supervised and unsupervised classifiers are used to perform multiclass classification of the aforementioned data. The experimental results presented in this paper support that it is possible to establish a relation between each tumor subtype and the extracted features of the patterns revealed on mammograms.
	Address
	Corporate Author				Thesis
	Publisher	IOS Press	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title	Frontiers in Artificial Intelligence and Applications	Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @TVR2015			Serial	2780
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	Author	E. Tavalera; Mariella Dimiccoli; Marc Bolaños; Maedeh Aghaei; Petia Radeva
	Title	Regularized Clustering for Egocentric Video Segmentation			Type	Book Chapter
	Year	2015	Publication	Pattern Recognition and Image Analysis	Abbreviated Journal
	Volume		Issue		Pages	327-336
	Keywords	Temporal video segmentation ; Egocentric videos ; Clustering
	Abstract	In this paper, we present a new method for egocentric video temporal segmentation based on integrating a statistical mean change detector and agglomerative clustering(AC) within an energyminimization framework. Given the tendency of most AC methods to oversegment video sequences when clustering their frames, we combine the clustering with a concept drift detection technique (ADWIN) that has rigorous guarantee of performances. ADWIN serves as a statistical upper bound for the clustering-based video segmentation. We integrate techniques in an energy-minimization framework that serves disambiguate the decision of both techniques and to complete the segmentation taking into account the temporal continuity of video frames We present experiments over egocentric sets of more than 13.000 images acquired with different wearable cameras, showing that our method outperforms state-of-the-art clustering methods.
	Address
	Corporate Author				Thesis
	Publisher	Springer International Publishing	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN		ISBN	978-3-319-19390-8	Medium
	Area		Expedition		Conference
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @TDB2015a			Serial	2781
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	Author	Mariella Dimiccoli
	Title	Fundamentals of cone regression			Type	Journal
	Year	2016	Publication	Journal of Statistics Surveys	Abbreviated Journal
	Volume	10	Issue		Pages	53-99
	Keywords	cone regression; linear complementarity problems; proximal operators.
	Abstract	Cone regression is a particular case of quadratic programming that minimizes a weighted sum of squared residuals under a set of linear inequality constraints. Several important statistical problems such as isotonic, concave regression or ANOVA under partial orderings, just to name a few, can be considered as particular instances of the cone regression problem. Given its relevance in Statistics, this paper aims to address the fundamentals of cone regression from a theoretical and practical point of view. Several formulations of the cone regression problem are considered and, focusing on the particular case of concave regression as an example, several algorithms are analyzed and compared both qualitatively and quantitatively through numerical simulations. Several improvements to enhance numerical stability and bound the computational cost are proposed. For each analyzed algorithm, the pseudo-code and its corresponding code in Matlab are provided. The results from this study demonstrate that the choice of the optimization approach strongly impacts the numerical performances. It is also shown that methods are not currently available to solve efficiently cone regression problems with large dimension (more than many thousands of points). We suggest further research to fill this gap by exploiting and adapting classical multi-scale strategy to compute an approximate 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	1935-7516	ISBN		Medium
	Area		Expedition		Conference
	Notes	MILAB;			Approved	no
	Call Number	Admin @ si @Dim2016a			Serial	2783
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	Author	Jean-Pascal Jacob; Mariella Dimiccoli; L. Moisan
	Title	Active skeleton for bacteria modelling			Type	Journal Article
	Year	2017	Publication	Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization	Abbreviated Journal	CMBBE
	Volume	5	Issue	4	Pages	274-286
	Keywords
	Abstract	The investigation of spatio-temporal dynamics of bacterial cells and their molecular components requires automated image analysis tools to track cell shape properties and molecular component locations inside the cells. In the study of bacteria aging, the molecular components of interest are protein aggregates accumulated near bacteria boundaries. This particular location makes very ambiguous the correspondence between aggregates and cells, since computing accurately bacteria boundaries in phase-contrast time-lapse imaging is a challenging task. This paper proposes an active skeleton formulation for bacteria modelling which provides several advantages: an easy computation of shape properties (perimeter, length, thickness and orientation), an improved boundary accuracy in noisy images and a natural bacteria-centred coordinate system that permits the intrinsic location of molecular components inside the cell. Starting from an initial skeleton estimate, the medial axis of the bacterium is obtained by minimising an energy function which incorporates bacteria shape constraints. Experimental results on biological images and comparative evaluation of the performances validate the proposed approach for modelling cigar-shaped bacteria like Escherichia coli. The Image-J plugin of the proposed method can be found online at http://fluobactracker.inrialpes.fr.
	Address
	Corporate Author				Thesis
	Publisher	Taylor & Francis Group	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	MILAB;			Approved	no
	Call Number	Admin @ si @JDM2017			Serial	2784
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	Author	A.S. Coquel; Jean-Pascal Jacob; M. Primet; A. Demarez; Mariella Dimiccoli; T. Julou; L. Moisan; A. Lindner; H. Berry
	Title	Localization of protein aggregation in Escherichia coli is governed by diffusion and nucleoid macromolecular crowding effect			Type	Journal Article
	Year	2013	Publication	Plos Computational Biology	Abbreviated Journal	PCB
	Volume	9	Issue	4	Pages
	Keywords
	Abstract	Aggregates of misfolded proteins are a hallmark of many age-related diseases. Recently, they have been linked to aging of Escherichia coli (E. coli) where protein aggregates accumulate at the old pole region of the aging bacterium. Because of the potential of E. coli as a model organism, elucidating aging and protein aggregation in this bacterium may pave the way to significant advances in our global understanding of aging. A first obstacle along this path is to decipher the mechanisms by which protein aggregates are targeted to specific intercellular locations. Here, using an integrated approach based on individual-based modeling, time-lapse fluorescence microscopy and automated image analysis, we show that the movement of aging-related protein aggregates in E. coli is purely diffusive (Brownian). Using single-particle tracking of protein aggregates in live E. coli cells, we estimated the average size and diffusion constant of the aggregates. Our results provide evidence that the aggregates passively diffuse within the cell, with diffusion constants that depend on their size in agreement with the Stokes-Einstein law. However, the aggregate displacements along the cell long axis are confined to a region that roughly corresponds to the nucleoid-free space in the cell pole, thus confirming the importance of increased macromolecular crowding in the nucleoids. We thus used 3D individual-based modeling to show that these three ingredients (diffusion, aggregation and diffusion hindrance in the nucleoids) are sufficient and necessary to reproduce the available experimental data on aggregate localization in the cells. Taken together, our results strongly support the hypothesis that the localization of aging-related protein aggregates in the poles of E. coli results from the coupling of passive diffusion-aggregation with spatially non-homogeneous macromolecular crowding. They further support the importance of “soft” intracellular structuring (based on macromolecular crowding) in diffusion-based protein localization in E. coli.
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor	: Stanislav Shvartsman, Princeton University, United States of America
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes				Approved	no
	Call Number	Admin @ si @CJP2013			Serial	2786
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	Author	Mariella Dimiccoli; Benoît Girard; Alain Berthoz; Daniel Bennequin
	Title	Striola Magica: a functional explanation of otolith organs			Type	Journal Article
	Year	2013	Publication	Journal of Computational Neuroscience	Abbreviated Journal	JCN
	Volume	35	Issue	2	Pages	125-154
	Keywords	Otolith organs ;Striola; Vestibular pathway
	Abstract	Otolith end organs of vertebrates sense linear accelerations of the head and gravitation. The hair cells on their epithelia are responsible for transduction. In mammals, the striola, parallel to the line where hair cells reverse their polarization, is a narrow region centered on a curve with curvature and torsion. It has been shown that the striolar region is functionally different from the rest, being involved in a phasic vestibular pathway. We propose a mathematical and computational model that explains the necessity of this amazing geometry for the striola to be able to carry out its function. Our hypothesis, related to the biophysics of the hair cells and to the physiology of their afferent neurons, is that striolar afferents collect information from several type I hair cells to detect the jerk in a large domain of acceleration directions. This predicts a mean number of two calyces for afferent neurons, as measured in rodents. The domain of acceleration directions sensed by our striolar model is compatible with the experimental results obtained on monkeys considering all afferents. Therefore, the main result of our study is that phasic and tonic vestibular afferents cover the same geometrical fields, but at different dynamical and frequency domains.
	Address
	Corporate Author				Thesis
	Publisher	Springer US	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	1573-6873. 2013	ISBN		Medium
	Area		Expedition		Conference
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @DBG2013			Serial	2787
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	Author	Maria Oliver; Gloria Haro; Mariella Dimiccoli; Baptiste Mazin; Coloma Ballester
	Title	A computational model of amodal completion			Type	Conference Article
	Year	2016	Publication	SIAM Conference on Imaging Science	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	This paper presents a computational model to recover the most likely interpretation of the 3D scene structure from a planar image, where some objects may occlude others. The estimated scene interpretation is obtained by integrating some global and local cues and provides both the complete disoccluded objects that form the scene and their ordering according to depth. Our method first computes several distal scenes which are compatible with the proximal planar image. To compute these different hypothesized scenes, we propose a perceptually inspired object disocclusion method, which works by minimizing the Euler's elastica as well as by incorporating the relatability of partially occluded contours and the convexity of the disoccluded objects. Then, to estimate the preferred scene we rely on a Bayesian model and define probabilities taking into account the global complexity of the objects in the hypothesized scenes as well as the effort of bringing these objects in their relative position in the planar image, which is also measured by an Euler's elastica-based quantity. The model is illustrated with numerical experiments on, both, synthetic and real images showing the ability of our model to reconstruct the occluded objects and the preferred perceptual order among them. We also present results on images of the Berkeley dataset with provided figure-ground ground-truth labeling.
	Address	Albuquerque; New Mexico; USA; May 2016
	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	IS
	Notes	MILAB; 601.235			Approved	no
	Call Number	Admin @ si @OHD2016a			Serial	2788
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	Author	G. de Oliveira; A. Cartas; Marc Bolaños; Mariella Dimiccoli; Xavier Giro; Petia Radeva
	Title	LEMoRe: A Lifelog Engine for Moments Retrieval at the NTCIR-Lifelog LSAT Task			Type	Conference Article
	Year	2016	Publication	12th NTCIR Conference on Evaluation of Information Access Technologies	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	Semantic image retrieval from large amounts of egocentric visual data requires to leverage powerful techniques for filling in the semantic gap. This paper introduces LEMoRe, a Lifelog Engine for Moments Retrieval, developed in the context of the Lifelog Semantic Access Task (LSAT) of the the NTCIR-12 challenge and discusses its performance variation on different trials. LEMoRe integrates classical image descriptors with high-level semantic concepts extracted by Convolutional Neural Networks (CNN), powered by a graphic user interface that uses natural language processing. Although this is just a first attempt towards interactive image retrieval from large egocentric datasets and there is a large room for improvement of the system components and the user interface, the structure of the system itself and the way the single components cooperate are very promising.
	Address	Tokyo; Japan; June 2016
	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	NTCIR
	Notes	MILAB;			Approved	no
	Call Number	Admin @ si @OCB2016			Serial	2789
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	Author	G. de Oliveira; Mariella Dimiccoli; Petia Radeva
	Title	Egocentric Image Retrieval With Deep Convolutional Neural Networks			Type	Conference Article
	Year	2016	Publication	19th International Conference of the Catalan Association for Artificial Intelligence	Abbreviated Journal
	Volume		Issue		Pages	71-76
	Keywords
	Abstract
	Address	Barcelona; Spain; October 2016
	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	MILAB			Approved	no
	Call Number	Admin @ si @ODR2016			Serial	2790
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	Author	Maedeh Aghaei; Mariella Dimiccoli; Petia Radeva
	Title	With whom do I interact with? Social interaction detection in egocentric photo-streams			Type	Conference Article
	Year	2016	Publication	23rd International Conference on Pattern Recognition	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	Given a user wearing a low frame rate wearable camera during a day, this work aims to automatically detect the moments when the user gets engaged into a social interaction solely by reviewing the automatically captured photos by the worn camera. The proposed method, inspired by the sociological concept of F-formation, exploits distance and orientation of the appearing individuals -with respect to the user- in the scene from a bird-view perspective. As a result, the interaction pattern over the sequence can be understood as a two-dimensional time series that corresponds to the temporal evolution of the distance and orientation features over time. A Long-Short Term Memory-based Recurrent Neural Network is then trained to classify each time series. Experimental evaluation over a dataset of 30.000 images has shown promising results on the proposed method for social interaction detection in egocentric photo-streams.
	Address	Cancun; Mexico; December 2016
	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	ICPR
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @ADR2016a			Serial	2791
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	Author	Mariella Dimiccoli; Petia Radeva
	Title	Lifelogging in the era of outstanding digitization			Type	Conference Article
	Year	2015	Publication	International Conference on Digital Presentation and Preservation of Cultural and Scientific Heritage	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	In this paper, we give an overview on the emerging trend of the digitized self, focusing on visual lifelogging through wearable cameras. This is about continuously recording our life from a first-person view by wearing a camera that passively captures images. On one hand, visual lifelogging has opened the door to a large number of applications, including health. On the other, it has also boosted new challenges in the field of data analysis as well as new ethical concerns. While currently increasing efforts are being devoted to exploit lifelogging data for the improvement of personal well-being, we believe there are still many interesting applications to explore, ranging from tourism to the digitization of human behavior.
	Address	Verliko Tarmovo; Bulgaria; September 2015
	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	DiPP
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @DiR2016			Serial	2792
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	Author	Aniol Lidon; Xavier Giro; Marc Bolaños; Petia Radeva; Markus Seidl; Matthias Zeppelzauer
	Title	UPC-UB-STP @ MediaEval 2015 diversity task: iterative reranking of relevant images			Type	Conference Article
	Year	2015	Publication	2015 MediaEval Retrieving Diverse Images Task	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	This paper presents the results of the UPC-UB-STP team in the 2015 MediaEval Retrieving Diverse Images Task. The goal of the challenge is to provide a ranked list of Flickr photos for a predefined set of queries. Our approach firstly generates a ranking of images based on a query-independent estimation of its relevance. Only top results are kept and iteratively re-ranked based on their intra-similarity to introduce diversity.
	Address	Wurzen; Germany; September 2015
	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	MediaEval
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @LGB2016			Serial	2793
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