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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	Aitor Alvarez-Gila
	Title	Self-supervised learning for image-to-image translation in the small data regime			Type	Book Whole
	Year	2022	Publication	PhD Thesis, Universitat Autonoma de Barcelona-CVC	Abbreviated Journal
	Volume		Issue		Pages
	Keywords	Computer vision; Neural networks; Self-supervised learning; Image-to-image mapping; Probabilistic programming
	Abstract	The mass irruption of Deep Convolutional Neural Networks (CNNs) in computer vision since 2012 led to a dominance of the image understanding paradigm consisting in an end-to-end fully supervised learning workflow over large-scale annotated datasets. This approach proved to be extremely useful at solving a myriad of classic and new computer vision tasks with unprecedented performance —often, surpassing that of humans—, at the expense of vast amounts of human-labeled data, extensive computational resources and the disposal of all of our prior knowledge on the task at hand. Even though simple transfer learning methods, such as fine-tuning, have achieved remarkable impact, their success when the amount of labeled data in the target domain is small is limited. Furthermore, the non-static nature of data generation sources will often derive in data distribution shifts that degrade the performance of deployed models. As a consequence, there is a growing demand for methods that can exploit elements of prior knowledge and sources of information other than the manually generated ground truth annotations of the images during the network training process, so that they can adapt to new domains that constitute, if not a small data regime, at least a small labeled data regime. This thesis targets such few or no labeled data scenario in three distinct image-to-image mapping learning problems. It contributes with various approaches that leverage our previous knowledge of different elements of the image formation process: We first present a data-efficient framework for both defocus and motion blur detection, based on a model able to produce realistic synthetic local degradations. The framework comprises a self-supervised, a weakly-supervised and a semi-supervised instantiation, depending on the absence or availability and the nature of human annotations, and outperforms fully-supervised counterparts in a variety of settings. Our knowledge on color image formation is then used to gather input and target ground truth image pairs for the RGB to hyperspectral image reconstruction task. We make use of a CNN to tackle this problem, which, for the first time, allows us to exploit spatial context and achieve state-of-the-art results given a limited hyperspectral image set. In our last contribution to the subfield of data-efficient image-to-image transformation problems, we present the novel semi-supervised task of zero-pair cross-view semantic segmentation: we consider the case of relocation of the camera in an end-to-end trained and deployed monocular, fixed-view semantic segmentation system often found in industry. Under the assumption that we are allowed to obtain an additional set of synchronized but unlabeled image pairs of new scenes from both original and new camera poses, we present ZPCVNet, a model and training procedure that enables the production of dense semantic predictions in either source or target views at inference time. The lack of existing suitable public datasets to develop this approach led us to the creation of MVMO, a large-scale Multi-View, Multi-Object path-traced dataset with per-view semantic segmentation annotations. We expect MVMO to propel future research in the exciting under-developed fields of cross-view and multi-view semantic segmentation. Last, in a piece of applied research of direct application in the context of process monitoring of an Electric Arc Furnace (EAF) in a steelmaking plant, we also consider the problem of simultaneously estimating the temperature and spectral emissivity of distant hot emissive samples. To that end, we design our own capturing device, which integrates three point spectrometers covering a wide range of the Ultra-Violet, visible, and Infra-Red spectra and is capable of registering the radiance signal incoming from an 8cm diameter spot located up to 20m away. We then define a physically accurate radiative transfer model that comprises the effects of atmospheric absorbance, of the optical system transfer function, and of the sample temperature and spectral emissivity themselves. We solve this inverse problem without the need for annotated data using a probabilistic programming-based Bayesian approach, which yields full posterior distribution estimates of the involved variables that are consistent with laboratory-grade measurements.
	Address	Julu, 2019
	Corporate Author				Thesis	Ph.D. thesis
	Publisher		Place of Publication		Editor	Joost Van de Weijer; Estibaliz Garrote
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes	LAMP			Approved	no
	Call Number	Admin @ si @ Alv2022			Serial	3716
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	Author	J.Poujol; Cristhian A. Aguilera-Carrasco; E.Danos; Boris X. Vintimilla; Ricardo Toledo; Angel Sappa
	Title	Visible-Thermal Fusion based Monocular Visual Odometry			Type	Conference Article
	Year	2015	Publication	2nd Iberian Robotics Conference ROBOT2015	Abbreviated Journal
	Volume	417	Issue		Pages	517-528
	Keywords	Monocular Visual Odometry; LWIR-RGB cross-spectral Imaging; Image Fusion.
	Abstract	The manuscript evaluates the performance of a monocular visual odometry approach when images from different spectra are considered, both independently and fused. The objective behind this evaluation is to analyze if classical approaches can be improved when the given images, which are from different spectra, are fused and represented in new domains. The images in these new domains should have some of the following properties: i) more robust to noisy data; ii) less sensitive to changes (e.g., lighting); iii) more rich in descriptive information, among other. In particular in the current work two different image fusion strategies are considered. Firstly, images from the visible and thermal spectrum are fused using a Discrete Wavelet Transform (DWT) approach. Secondly, a monochrome threshold strategy is considered. The obtained representations are evaluated under a visual odometry framework, highlighting their advantages and disadvantages, using different urban and semi-urban scenarios. Comparisons with both monocular-visible spectrum and monocular-infrared spectrum, are also provided showing the validity of the proposed approach.
	Address	Lisboa; Portugal; November 2015
	Corporate Author				Thesis
	Publisher	Springer International Publishing	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	2194-5357	ISBN	978-3-319-27145-3	Medium
	Area		Expedition		Conference	ROBOT
	Notes	ADAS; 600.076; 600.086			Approved	no
	Call Number	Admin @ si @ PAD2015			Serial	2663
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	Author	Simone Balocco; Mauricio Gonzalez; Ricardo Ñancule; Petia Radeva; Gabriel Thomas
	Title	Calcified Plaque Detection in IVUS Sequences: Preliminary Results Using Convolutional Nets			Type	Conference Article
	Year	2018	Publication	International Workshop on Artificial Intelligence and Pattern Recognition	Abbreviated Journal
	Volume	11047	Issue		Pages	34-42
	Keywords	Intravascular ultrasound images; Convolutional nets; Deep learning; Medical image analysis
	Abstract	The manual inspection of intravascular ultrasound (IVUS) images to detect clinically relevant patterns is a difficult and laborious task performed routinely by physicians. In this paper, we present a framework based on convolutional nets for the quick selection of IVUS frames containing arterial calcification, a pattern whose detection plays a vital role in the diagnosis of atherosclerosis. Preliminary experiments on a dataset acquired from eighty patients show that convolutional architectures improve detections of a shallow classifier in terms of 𝐹1-measure, precision and recall.
	Address	Cuba; 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	IWAIPR
	Notes	MILAB; no menciona			Approved	no
	Call Number	Admin @ si @ BGÑ2018			Serial	3237
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	Author	Victoria Ruiz; Angel Sanchez; Jose F. Velez; Bogdan Raducanu
	Title	Automatic Image-Based Waste Classification			Type	Conference Article
	Year	2019	Publication	International Work-Conference on the Interplay Between Natural and Artificial Computation. From Bioinspired Systems and Biomedical Applications to Machine Learning	Abbreviated Journal
	Volume	11487	Issue		Pages	422–431
	Keywords	Computer Vision; Deep learning; Convolutional neural networks; Waste classification
	Abstract	The management of solid waste in large urban environments has become a complex problem due to increasing amount of waste generated every day by citizens and companies. Current Computer Vision and Deep Learning techniques can help in the automatic detection and classification of waste types for further recycling tasks. In this work, we use the TrashNet dataset to train and compare different deep learning architectures for automatic classification of garbage types. In particular, several Convolutional Neural Networks (CNN) architectures were compared: VGG, Inception and ResNet. The best classification results were obtained using a combined Inception-ResNet model that achieved 88.6% of accuracy. These are the best results obtained with the considered dataset.
	Address	Almeria; June 2019
	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	IWINAC
	Notes	LAMP; 600.120			Approved	no
	Call Number	RSV2019			Serial	3273
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	Author	Lu Yu; Yongmei Cheng; Joost Van de Weijer
	Title	Weakly Supervised Domain-Specific Color Naming Based on Attention			Type	Conference Article
	Year	2018	Publication	24th International Conference on Pattern Recognition	Abbreviated Journal
	Volume		Issue		Pages	3019 - 3024
	Keywords
	Abstract	The majority of existing color naming methods focuses on the eleven basic color terms of the English language. However, in many applications, different sets of color names are used for the accurate description of objects. Labeling data to learn these domain-specific color names is an expensive and laborious task. Therefore, in this article we aim to learn color names from weakly labeled data. For this purpose, we add an attention branch to the color naming network. The attention branch is used to modulate the pixel-wise color naming predictions of the network. In experiments, we illustrate that the attention branch correctly identifies the relevant regions. Furthermore, we show that our method obtains state-of-the-art results for pixel-wise and image-wise classification on the EBAY dataset and is able to learn color names for various domains.
	Address	Beijing; August 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	ICPR
	Notes	LAMP; 600.109; 602.200; 600.120			Approved	no
	Call Number	Admin @ si @ YCW2018			Serial	3243
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	Author	Aymen Azaza
	Title	Context, Motion and Semantic Information for Computational Saliency			Type	Book Whole
	Year	2018	Publication	PhD Thesis, Universitat Autonoma de Barcelona-CVC	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	The main objective of this thesis is to highlight the salient object in an image or in a video sequence. We address three important—but in our opinion insufficiently investigated—aspects of saliency detection. Firstly, we start by extending previous research on saliency which explicitly models the information provided from the context. Then, we show the importance of explicit context modelling for saliency estimation. Several important works in saliency are based on the usage of object proposals. However, these methods focus on the saliency of the object proposal itself and ignore the context. To introduce context in such saliency approaches, we couple every object proposal with its direct context. This allows us to evaluate the importance of the immediate surround (context) for its saliency. We propose several saliency features which are computed from the context proposals including features based on omni-directional and horizontal context continuity. Secondly, we investigate the usage of top-downmethods (high-level semantic information) for the task of saliency prediction since most computational methods are bottom-up or only include few semantic classes. We propose to consider a wider group of object classes. These objects represent important semantic information which we will exploit in our saliency prediction approach. Thirdly, we develop a method to detect video saliency by computing saliency from supervoxels and optical flow. In addition, we apply the context features developed in this thesis for video saliency detection. The method combines shape and motion features with our proposed context features. To summarize, we prove that extending object proposals with their direct context improves the task of saliency detection in both image and video data. Also the importance of the semantic information in saliency estimation is evaluated. Finally, we propose a newmotion feature to detect saliency in video data. The three proposed novelties are evaluated on standard saliency benchmark datasets and are shown to improve with respect to state-of-the-art.
	Address	October 2018
	Corporate Author				Thesis	Ph.D. thesis
	Publisher	Ediciones Graficas Rey	Place of Publication		Editor	Joost Van de Weijer;Ali Douik
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN	978-84-945373-9-4	Medium
	Area		Expedition		Conference
	Notes	LAMP; 600.120			Approved	no
	Call Number	Admin @ si @ Aza2018			Serial	3218
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	Author	Javier M. Olaso; Alain Vazquez; Leila Ben Letaifa; Mikel de Velasco; Aymen Mtibaa; Mohamed Amine Hmani; Dijana Petrovska-Delacretaz; Gerard Chollet; Cesar Montenegro; Asier Lopez-Zorrilla; Raquel Justo; Roberto Santana; Jofre Tenorio-Laranga; Eduardo Gonzalez-Fraile; Begoña Fernandez-Ruanova; Gennaro Cordasco; Anna Esposito; Kristin Beck Gjellesvik; Anna Torp Johansen; Maria Stylianou Kornes; Colin Pickard; Cornelius Glackin; Gary Cahalane; Pau Buch; Cristina Palmero; Sergio Escalera; Olga Gordeeva; Olivier Deroo; Anaïs Fernandez; Daria Kyslitska; Jose Antonio Lozano; Maria Ines Torres; Stephan Schlogl
	Title	The EMPATHIC Virtual Coach: a demo			Type	Conference Article
	Year	2021	Publication	23rd ACM International Conference on Multimodal Interaction	Abbreviated Journal
	Volume		Issue		Pages	848-851
	Keywords
	Abstract	The main objective of the EMPATHIC project has been the design and development of a virtual coach to engage the healthy-senior user and to enhance well-being through awareness of personal status. The EMPATHIC approach addresses this objective through multimodal interactions supported by the GROW coaching model. The paper summarizes the main components of the EMPATHIC Virtual Coach (EMPATHIC-VC) and introduces a demonstration of the coaching sessions in selected scenarios.
	Address	Virtual; October 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	ICMI
	Notes	HUPBA; no proj			Approved	no
	Call Number	Admin @ si @ OVB2021			Serial	3644
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	Author	Pierluigi Casale
	Title	Approximate Ensemble Methods for Physical Activity Recognition Applications			Type	Book Whole
	Year	2011	Publication	PhD Thesis, Universitat de Barcelona-CVC	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	The main interest of this thesis focuses on computational methodologies able to reduce the degree of complexity of learning algorithms and its application to physical activity recognition. Random Projections will be used to reduce the computational complexity in Multiple Classifier Systems. A new boosting algorithm and a new one-class classification methodology have been developed. In both cases, random projections are used for reducing the dimensionality of the problem and for generating diversity, exploiting in this way the benefits that ensembles of classifiers provide in terms of performances and stability. Moreover, the new one-class classification methodology, based on an ensemble strategy able to approximate a multidimensional convex-hull, has been proved to over-perform state-of-the-art one-class classification methodologies. The practical focus of the thesis is towards Physical Activity Recognition. A new hardware platform for wearable computing application has been developed and used for collecting data of activities of daily living allowing to study the optimal features set able to successful classify activities. Based on the classification methodologies developed and the study conducted on physical activity classification, a machine learning architecture capable to provide a continuous authentication mechanism for mobile-devices users has been worked out, as last part of the thesis. The system, based on a personalized classifier, states on the analysis of the characteristic gait patterns typical of each individual ensuring an unobtrusive and continuous authentication mechanism
	Address
	Corporate Author				Thesis	Ph.D. thesis
	Publisher	Ediciones Graficas Rey	Place of Publication		Editor	Oriol Pujol;Petia Radeva
	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 @ Cas2011			Serial	1837
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	Author	Petia Radeva; Enric Marti
	Title	An improved model of snakes for model-based segmentation			Type	Conference Article
	Year	1995	Publication	Proceedings of Computer Analysis of Images and Patterns	Abbreviated Journal
	Volume		Issue		Pages	515-520
	Keywords
	Abstract	The main advantage of segmentation by snakes consists in its ability to incorporate smoothness constraints on the detected shapes that can occur. Likewise, we propose to model snakes with other properties that reflect the information provided about the object of interest in a different extent. We consider different kinds of snakes, those searching for contours with a certain direction, those preserving an object’s model, those seeking for symmetry, those expanding open, etc. The availability of such a collection of snakes allows not only the more complete use of the knowledge about the segmented object, but also to solve some problems of the existing snakes. Our experiments on segmentation of facial features justify the usefulness of snakes with different properties.
	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	CAIP
	Notes	MILAB;IAM			Approved	no
	Call Number	IAM @ iam @ RaM1995b			Serial	1632
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	Author	Naveen Onkarappa; Angel Sappa
	Title	Space Variant Representations for Mobile Platform Vision Applications			Type	Conference Article
	Year	2011	Publication	14th International Conference on Computer Analysis of Images and Patterns	Abbreviated Journal
	Volume	6855	Issue	II	Pages	146-154
	Keywords
	Abstract	The log-polar space variant representation, motivated by biological vision, has been widely studied in the literature. Its data reduction and invariance properties made it useful in many vision applications. However, due to its nature, it fails in preserving features in the periphery. In the current work, as an attempt to overcome this problem, we propose a novel space-variant representation. It is evaluated and proved to be better than the log-polar representation in preserving the peripheral information, crucial for on-board mobile vision applications. The evaluation is performed by comparing log-polar and the proposed representation once they are used for estimating dense optical flow.
	Address	Seville, Spain
	Corporate Author				Thesis
	Publisher	Springer Berlin Heidelberg	Place of Publication		Editor	P. Real, D. Diaz, H. Molina, A. Berciano, W. Kropatsch
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0302-9743	ISBN	978-3-642-23677-8	Medium
	Area		Expedition		Conference	CAIP
	Notes	ADAS			Approved	no
	Call Number	NaS2011; ADAS @ adas @			Serial	1686
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	Author	V.C.Kieu; Alicia Fornes; M. Visani; N.Journet ; Anjan Dutta
	Title	The ICDAR/GREC 2013 Music Scores Competition on Staff Removal			Type	Conference Article
	Year	2013	Publication	10th IAPR International Workshop on Graphics Recognition	Abbreviated Journal
	Volume		Issue		Pages
	Keywords	Competition; Music scores; Staff Removal
	Abstract	The ﬁrst competition on music scores that was organized at ICDAR and GREC in 2011 awoke the interest of researchers, who participated both at staff removal and writer identiﬁcation tasks. In this second edition, we propose a staff removal competition where we simulate old music scores. Thus, we have created a new set of images, which contain noise and 3D distortions. This paper describes the distortion methods, metrics, the participant’s methods and the obtained results.
	Address	Bethlehem; PA; USA; August 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	GREC
	Notes	DAG; 600.045; 600.061			Approved	no
	Call Number	Admin @ si @ KFV2013			Serial	2337
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	Author	Ajian Liu; Zichang Tan; Jun Wan; Sergio Escalera; Guodong Guo; Stan Z. Li
	Title	CASIA-SURF CeFA: A Benchmark for Multi-modal Cross-Ethnicity Face Anti-Spoofing			Type	Conference Article
	Year	2021	Publication	IEEE Winter Conference on Applications of Computer Vision	Abbreviated Journal
	Volume		Issue		Pages	1178-1186
	Keywords
	Abstract	The issue of ethnic bias has proven to affect the performance of face recognition in previous works, while it still remains to be vacant in face anti-spoofing. Therefore, in order to study the ethnic bias for face anti-spoofing, we introduce the largest CASIA-SURF Cross-ethnicity Face Anti-spoofing (CeFA) dataset, covering 3 ethnicities, 3 modalities, 1,607 subjects, and 2D plus 3D attack types. Five protocols are introduced to measure the affect under varied evaluation conditions, such as cross-ethnicity, unknown spoofs or both of them. As our knowledge, CASIA-SURF CeFA is the first dataset including explicit ethnic labels in current released datasets. Then, we propose a novel multi-modal fusion method as a strong baseline to alleviate the ethnic bias, which employs a partially shared fusion strategy to learn complementary information from multiple modalities. Extensive experiments have been conducted on the proposed dataset to verify its significance and generalization capability for other existing datasets, i.e., CASIA-SURF, OULU-NPU and SiW datasets. The dataset is available at https://sites.google.com/qq.com/face-anti-spoofing/welcome/challengecvpr2020?authuser=0.
	Address	Virtual; January 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	WACV
	Notes	HUPBA; no proj			Approved	no
	Call Number	Admin @ si @ LTW2021			Serial	3661
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	Author	Jean-Pascal Jacob; Mariella Dimiccoli; Lionel Moisan
	Title	Active skeleton for bacteria modeling			Type	Journal Article
	Year	2016	Publication	Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization	Abbreviated Journal	CMBBE
	Volume	5	Issue	4	Pages	274-286
	Keywords	Bacteria modelling; medial axis; active contours; active skeleton; shape contraints
	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 modeling which provides several advantages: an easy computation of shape properties (perimeter, length, thickness, orientation), an improved boundary accuracy in noisy images, and a natural bacteria-centered 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 minimizing an energy function which incorporates bacteria shape constraints. Experimental results on biological images and comparative evaluation of the performances validate the proposed approach for modeling cigar-shaped bacteria like Escherichia coli. The Image-J plugin of the proposed method can be found online at this http URL
	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	MILAB			Approved	no
	Call Number	Admin @ si @ JDM2016			Serial	2711
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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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