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Author Mireia Sole; Joan Blanco; Debora Gil; Oliver Valero; B. Cardenas; G. Fonseka; E. Anton; Alvaro Pascual; Richard Frodsham; Zaida Sarrate edit  doi
openurl 
  Title Time to match; when do homologous chromosomes become closer? Type Journal Article
  Year 2022 Publication Chromosoma Abbreviated Journal (down) CHRO  
  Volume Issue Pages  
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  Abstract In most eukaryotes, pairing of homologous chromosomes is an essential feature of meiosis that ensures homologous recombination and segregation. However, when the pairing process begins, it is still under investigation. Contrasting data exists in Mus musculus, since both leptotene DSB-dependent and preleptotene DSB-independent mechanisms have been described. To unravel this contention, we examined homologous pairing in pre-meiotic and meiotic Mus musculus cells using a threedimensional fuorescence in situ hybridization-based protocol, which enables the analysis of the entire karyotype using DNA painting probes. Our data establishes in an unambiguously manner that 73.83% of homologous chromosomes are already paired at premeiotic stages (spermatogonia-early preleptotene spermatocytes). The percentage of paired homologous chromosomes increases to 84.60% at mid-preleptotene-zygotene stage, reaching 100% at pachytene stage. Importantly, our results demonstrate a high percentage of homologous pairing observed before the onset of meiosis; this pairing does not occur randomly, as the percentage was higher than that observed in somatic cells (19.47%) and between nonhomologous chromosomes (41.1%). Finally, we have also observed that premeiotic homologous pairing is asynchronous and independent of the chromosome size, GC content, or presence of NOR regions.  
  Address August, 2022  
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  Notes IAM; 601.139; 600.145; 600.096 Approved no  
  Call Number Admin @ si @ SBG2022 Serial 3719  
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Author Marta Diez-Ferrer; Debora Gil; Elena Carreño; Susana Padrones; Samantha Aso; Vanesa Vicens; Cubero Noelia; Rosa Lopez Lisbona; Carles Sanchez; Agnes Borras; Antoni Rosell edit  url
openurl 
  Title Positive Airway Pressure-Enhanced CT to Improve Virtual Bronchoscopic Navigation Type Journal Article
  Year 2016 Publication Chest Journal Abbreviated Journal (down) CHEST  
  Volume 150 Issue 4 Pages 1003A  
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  Notes IAM; 600.096; 600.075 Approved no  
  Call Number Admin @ si @ DGC2016 Serial 3099  
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Author Enric Marti; Carme Julia; Debora Gil edit  doi
openurl 
  Title A PBL Experience in the Teaching of Computer Graphics Type Journal Article
  Year 2006 Publication Computer Graphics Forum Abbreviated Journal (down) CGF  
  Volume 25 Issue 1 Pages 95-103  
  Keywords  
  Abstract Project-Based Learning (PBL) is an educational strategy to improve student’s learning capability that, in recent years, has had a progressive acceptance in undergraduate studies. This methodology is based on solving a problem or project in a student working group. In this way, PBL focuses on learning the necessary tools to correctly find a solution to given problems. Since the learning initiative is transferred to the student, the PBL method promotes students own abilities. This allows a better assessment of the true workload that carries out the student in the subject. It follows that the methodology conforms to the guidelines of the Bologna document, which quantifies the student workload in a subject by means of the European credit transfer system (ECTS). PBL is currently applied in undergraduate studies needing strong practical training such as medicine, nursing or law sciences. Although this is also the case in engineering studies, amazingly, few experiences have been reported. In this paper we propose to use PBL in the educational organization of the Computer Graphics subjects in the Computer Science degree. Our PBL project focuses in the development of a C++ graphical environment based on the OpenGL libraries for visualization and handling of different graphical objects. The starting point is a basic skeleton that already includes lighting functions, perspective projection with mouse interaction to change the point of view and three predefined objects. Students have to complete this skeleton by adding their own functions to solve the project. A total number of 10 projects have been proposed and successfully solved. The exercises range from human face rendering to articulated objects, such as robot arms or puppets. In the present paper we extensively report the statement and educational objectives for two of the projects: solar system visualization and a chess game. We report our earlier educational experience based on the standard classroom theoretical, problem and practice sessions and the reasons that motivated searching for other learning methods. We have mainly chosen PBL because it improves the student learning initiative. We have applied the PBL educational model since the beginning of the second semester. The student’s feedback increases in his interest for the subject. We present a comparative study of the teachers’ and students’ workload between PBL and the classic teaching approach, which suggests that the workload increase in PBL is not as high as it seems.  
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  Publisher Computer Graphics Forum Place of Publication Computer Vision CenterComputer Science Department Escola Tcnica Superior d’Enginyeria (UAB), Edifi Editor  
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  Notes IAM;ADAS; Approved no  
  Call Number IAM @ iam @ MJG2006a Serial 1607  
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Author Sergio Escalera; Ana Puig; Oscar Amoros; Maria Salamo edit  doi
openurl 
  Title Intelligent GPGPU Classification in Volume Visualization: a framework based on Error-Correcting Output Codes Type Journal Article
  Year 2011 Publication Computer Graphics Forum Abbreviated Journal (down) CGF  
  Volume 30 Issue 7 Pages 2107-2115  
  Keywords  
  Abstract IF JCR 1.455 2010 25/99
In volume visualization, the definition of the regions of interest is inherently an iterative trial-and-error process finding out the best parameters to classify and render the final image. Generally, the user requires a lot of expertise to analyze and edit these parameters through multi-dimensional transfer functions. In this paper, we present a framework of intelligent methods to label on-demand multiple regions of interest. These methods can be split into a two-level GPU-based labelling algorithm that computes in time of rendering a set of labelled structures using the Machine Learning Error-Correcting Output Codes (ECOC) framework. In a pre-processing step, ECOC trains a set of Adaboost binary classifiers from a reduced pre-labelled data set. Then, at the testing stage, each classifier is independently applied on the features of a set of unlabelled samples and combined to perform multi-class labelling. We also propose an alternative representation of these classifiers that allows to highly parallelize the testing stage. To exploit that parallelism we implemented the testing stage in GPU-OpenCL. The empirical results on different data sets for several volume structures shows high computational performance and classification accuracy.
 
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  Notes MILAB; HuPBA Approved no  
  Call Number Admin @ si @ EPA2011 Serial 1881  
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Author Danna Xue; Javier Vazquez; Luis Herranz; Yang Zhang; Michael S Brown edit  url
openurl 
  Title Integrating High-Level Features for Consistent Palette-based Multi-image Recoloring Type Journal Article
  Year 2023 Publication Computer Graphics Forum Abbreviated Journal (down) CGF  
  Volume Issue Pages  
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  Abstract Achieving visually consistent colors across multiple images is important when images are used in photo albums, websites, and brochures. Unfortunately, only a handful of methods address multi-image color consistency compared to one-to-one color transfer techniques. Furthermore, existing methods do not incorporate high-level features that can assist graphic designers in their work. To address these limitations, we introduce a framework that builds upon a previous palette-based color consistency method and incorporates three high-level features: white balance, saliency, and color naming. We show how these features overcome the limitations of the prior multi-consistency workflow and showcase the user-friendly nature of our framework.  
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  Notes CIC; MACO Approved no  
  Call Number Admin @ si @ XVH2023 Serial 3883  
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Author Naila Murray; Sandra Skaff; Luca Marchesotti; Florent Perronnin edit  url
openurl 
  Title Towards automatic and flexible concept transfer Type Journal Article
  Year 2012 Publication Computers and Graphics Abbreviated Journal (down) CG  
  Volume 36 Issue 6 Pages 622–634  
  Keywords  
  Abstract This paper introduces a novel approach to automatic, yet flexible, image concepttransfer; examples of concepts are “romantic”, “earthy”, and “luscious”. The presented method modifies the color content of an input image given only a concept specified by a user in natural language, thereby requiring minimal user input. This method is particularly useful for users who are aware of the message they wish to convey in the transferred image while being unsure of the color combination needed to achieve the corresponding transfer. Our framework is flexible for two reasons. First, the user may select one of two modalities to map input image chromaticities to target concept chromaticities depending on the level of photo-realism required. Second, the user may adjust the intensity level of the concepttransfer to his/her liking with a single parameter. The proposed method uses a convex clustering algorithm, with a novel pruning mechanism, to automatically set the complexity of models of chromatic content. Results show that our approach yields transferred images which effectively represent concepts as confirmed by a user study.  
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  Series Volume Series Issue Edition  
  ISSN 0097-8493 ISBN Medium  
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  Notes CIC Approved no  
  Call Number Admin @ si @ MSM2012 Serial 2002  
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Author Egils Avots; M. Daneshmanda; Andres Traumann; Sergio Escalera; G. Anbarjafaria edit   pdf
doi  openurl
  Title Automatic garment retexturing based on infrared information Type Journal Article
  Year 2016 Publication Computers & Graphics Abbreviated Journal (down) CG  
  Volume 59 Issue Pages 28-38  
  Keywords Garment Retexturing; Texture Mapping; Infrared Images; RGB-D Acquisition Devices; Shading  
  Abstract This paper introduces a new automatic technique for garment retexturing using a single static image along with the depth and infrared information obtained using the Microsoft Kinect II as the RGB-D acquisition device. First, the garment is segmented out from the image using either the Breadth-First Search algorithm or the semi-automatic procedure provided by the GrabCut method. Then texture domain coordinates are computed for each pixel belonging to the garment using normalised 3D information. Afterwards, shading is applied to the new colours from the texture image. As the main contribution of the proposed method, the latter information is obtained based on extracting a linear map transforming the colour present on the infrared image to that of the RGB colour channels. One of the most important impacts of this strategy is that the resulting retexturing algorithm is colour-, pattern- and lighting-invariant. The experimental results show that it can be used to produce realistic representations, which is substantiated through implementing it under various experimentation scenarios, involving varying lighting intensities and directions. Successful results are accomplished also on video sequences, as well as on images of subjects taking different poses. Based on the Mean Opinion Score analysis conducted on many randomly chosen users, it has been shown to produce more realistic-looking results compared to the existing state-of-the-art methods suggested in the literature. From a wide perspective, the proposed method can be used for retexturing all sorts of segmented surfaces, although the focus of this study is on garment retexturing, and the investigation of the configurations is steered accordingly, since the experiments target an application in the context of virtual fitting rooms.  
  Address  
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  Publisher Elsevier Place of Publication Editor  
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  Notes HuPBA;MILAB; Approved no  
  Call Number Admin @ si @ ADT2016 Serial 2759  
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Author Oscar Argudo; Marc Comino; Antonio Chica; Carlos Andujar; Felipe Lumbreras edit  url
openurl 
  Title Segmentation of aerial images for plausible detail synthesis Type Journal Article
  Year 2018 Publication Computers & Graphics Abbreviated Journal (down) CG  
  Volume 71 Issue Pages 23-34  
  Keywords Terrain editing; Detail synthesis; Vegetation synthesis; Terrain rendering; Image segmentation  
  Abstract The visual enrichment of digital terrain models with plausible synthetic detail requires the segmentation of aerial images into a suitable collection of categories. In this paper we present a complete pipeline for segmenting high-resolution aerial images into a user-defined set of categories distinguishing e.g. terrain, sand, snow, water, and different types of vegetation. This segmentation-for-synthesis problem implies that per-pixel categories must be established according to the algorithms chosen for rendering the synthetic detail. This precludes the definition of a universal set of labels and hinders the construction of large training sets. Since artists might choose to add new categories on the fly, the whole pipeline must be robust against unbalanced datasets, and fast on both training and inference. Under these constraints, we analyze the contribution of common per-pixel descriptors, and compare the performance of state-of-the-art supervised learning algorithms. We report the findings of two user studies. The first one was conducted to analyze human accuracy when manually labeling aerial images. The second user study compares detailed terrains built using different segmentation strategies, including official land cover maps. These studies demonstrate that our approach can be used to turn digital elevation models into fully-featured, detailed terrains with minimal authoring efforts.  
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  Series Volume Series Issue Edition  
  ISSN 0097-8493 ISBN Medium  
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  Notes ADAS; 600.086; 600.118 Approved no  
  Call Number Admin @ si @ ACC2018 Serial 3147  
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Author Eduardo Aguilar; Bhalaji Nagarajan; Beatriz Remeseiro; Petia Radeva edit  doi
openurl 
  Title Bayesian deep learning for semantic segmentation of food images Type Journal Article
  Year 2022 Publication Computers and Electrical Engineering Abbreviated Journal (down) CEE  
  Volume 103 Issue Pages 108380  
  Keywords Deep learning; Uncertainty quantification; Bayesian inference; Image segmentation; Food analysis  
  Abstract Deep learning has provided promising results in various applications; however, algorithms tend to be overconfident in their predictions, even though they may be entirely wrong. Particularly for critical applications, the model should provide answers only when it is very sure of them. This article presents a Bayesian version of two different state-of-the-art semantic segmentation methods to perform multi-class segmentation of foods and estimate the uncertainty about the given predictions. The proposed methods were evaluated on three public pixel-annotated food datasets. As a result, we can conclude that Bayesian methods improve the performance achieved by the baseline architectures and, in addition, provide information to improve decision-making. Furthermore, based on the extracted uncertainty map, we proposed three measures to rank the images according to the degree of noisy annotations they contained. Note that the top 135 images ranked by one of these measures include more than half of the worst-labeled food images.  
  Address October 2022  
  Corporate Author Thesis  
  Publisher Science Direct Place of Publication Editor  
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  Notes MILAB Approved no  
  Call Number Admin @ si @ ANR2022 Serial 3763  
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Author Henry Velesaca; Patricia Suarez; Raul Mira; Angel Sappa edit   pdf
url  openurl
  Title Computer Vision based Food Grain Classification: a Comprehensive Survey Type Journal Article
  Year 2021 Publication Computers and Electronics in Agriculture Abbreviated Journal (down) CEA  
  Volume 187 Issue Pages 106287  
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  Abstract This manuscript presents a comprehensive survey on recent computer vision based food grain classification techniques. It includes state-of-the-art approaches intended for different grain varieties. The approaches proposed in the literature are analyzed according to the processing stages considered in the classification pipeline, making it easier to identify common techniques and comparisons. Additionally, the type of images considered by each approach (i.e., images from the: visible, infrared, multispectral, hyperspectral bands) together with the strategy used to generate ground truth data (i.e., real and synthetic images) are reviewed. Finally, conclusions highlighting future needs and challenges are presented.  
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  Notes MSIAU; 600.130; 600.122 Approved no  
  Call Number Admin @ si @ VSM2021 Serial 3576  
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Author Frederic Sampedro; Sergio Escalera; Anna Domenech; Ignasi Carrio edit  doi
openurl 
  Title A computational framework for cancer response assessment based on oncological PET-CT scans Type Journal Article
  Year 2014 Publication Computers in Biology and Medicine Abbreviated Journal (down) CBM  
  Volume 55 Issue Pages 92–99  
  Keywords Computer aided diagnosis; Nuclear medicine; Machine learning; Image processing; Quantitative analysis  
  Abstract In this work we present a comprehensive computational framework to help in the clinical assessment of cancer response from a pair of time consecutive oncological PET-CT scans. In this scenario, the design and implementation of a supervised machine learning system to predict and quantify cancer progression or response conditions by introducing a novel feature set that models the underlying clinical context is described. Performance results in 100 clinical cases (corresponding to 200 whole body PET-CT scans) in comparing expert-based visual analysis and classifier decision making show up to 70% accuracy within a completely automatic pipeline and 90% accuracy when providing the system with expert-guided PET tumor segmentation masks.  
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  Notes HuPBA;MILAB Approved no  
  Call Number Admin @ si @ SED2014 Serial 2606  
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Author Michal Drozdzal; Santiago Segui; Petia Radeva; Carolina Malagelada; Fernando Azpiroz; Jordi Vitria edit  doi
openurl 
  Title Motility bar: a new tool for motility analysis of endoluminal videos Type Journal Article
  Year 2015 Publication Computers in Biology and Medicine Abbreviated Journal (down) CBM  
  Volume 65 Issue Pages 320-330  
  Keywords Small intestine; Motility; WCE; Computer vision; Image classification  
  Abstract Wireless Capsule Endoscopy (WCE) provides a new perspective of the small intestine, since it enables, for the first time, visualization of the entire organ. However, the long visual video analysis time, due to the large number of data in a single WCE study, was an important factor impeding the widespread use of the capsule as a tool for intestinal abnormalities detection. Therefore, the introduction of WCE triggered a new field for the application of computational methods, and in particular, of computer vision. In this paper, we follow the computational approach and come up with a new perspective on the small intestine motility problem. Our approach consists of three steps: first, we review a tool for the visualization of the motility information contained in WCE video; second, we propose algorithms for the characterization of two motility building-blocks: contraction detector and lumen size estimation; finally, we introduce an approach to detect segments of stable motility behavior. Our claims are supported by an evaluation performed with 10 WCE videos, suggesting that our methods ably capture the intestinal motility information.  
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  Notes MILAB;MV Approved no  
  Call Number Admin @ si @ DSR2015 Serial 2635  
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Author Santiago Segui; Michal Drozdzal; Guillem Pascual; Petia Radeva; Carolina Malagelada; Fernando Azpiroz; Jordi Vitria edit   pdf
url  openurl
  Title Generic Feature Learning for Wireless Capsule Endoscopy Analysis Type Journal Article
  Year 2016 Publication Computers in Biology and Medicine Abbreviated Journal (down) CBM  
  Volume 79 Issue Pages 163-172  
  Keywords Wireless capsule endoscopy; Deep learning; Feature learning; Motility analysis  
  Abstract The interpretation and analysis of wireless capsule endoscopy (WCE) recordings is a complex task which requires sophisticated computer aided decision (CAD) systems to help physicians with video screening and, finally, with the diagnosis. Most CAD systems used in capsule endoscopy share a common system design, but use very different image and video representations. As a result, each time a new clinical application of WCE appears, a new CAD system has to be designed from the scratch. This makes the design of new CAD systems very time consuming. Therefore, in this paper we introduce a system for small intestine motility characterization, based on Deep Convolutional Neural Networks, which circumvents the laborious step of designing specific features for individual motility events. Experimental results show the superiority of the learned features over alternative classifiers constructed using state-of-the-art handcrafted features. In particular, it reaches a mean classification accuracy of 96% for six intestinal motility events, outperforming the other classifiers by a large margin (a 14% relative performance increase).  
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  Notes OR; MILAB;MV; Approved no  
  Call Number Admin @ si @ SDP2016 Serial 2836  
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Author Sumit K. Banchhor; Narendra D. Londhe; Tadashi Araki; Luca Saba; Petia Radeva; Narendra N. Khanna; Jasjit S. Suri edit  url
openurl 
  Title Calcium detection, its quantification, and grayscale morphology-based risk stratification using machine learning in multimodality big data coronary and carotid scans: A review. Type Journal Article
  Year 2018 Publication Computers in Biology and Medicine Abbreviated Journal (down) CBM  
  Volume 101 Issue Pages 184-198  
  Keywords Heart disease; Stroke; Atherosclerosis; Intravascular; Coronary; Carotid; Calcium; Morphology; Risk stratification  
  Abstract Purpose of review

Atherosclerosis is the leading cause of cardiovascular disease (CVD) and stroke. Typically, atherosclerotic calcium is found during the mature stage of the atherosclerosis disease. It is therefore often a challenge to identify and quantify the calcium. This is due to the presence of multiple components of plaque buildup in the arterial walls. The American College of Cardiology/American Heart Association guidelines point to the importance of calcium in the coronary and carotid arteries and further recommend its quantification for the prevention of heart disease. It is therefore essential to stratify the CVD risk of the patient into low- and high-risk bins.
Recent finding

Calcium formation in the artery walls is multifocal in nature with sizes at the micrometer level. Thus, its detection requires high-resolution imaging. Clinical experience has shown that even though optical coherence tomography offers better resolution, intravascular ultrasound still remains an important imaging modality for coronary wall imaging. For a computer-based analysis system to be complete, it must be scientifically and clinically validated. This study presents a state-of-the-art review (condensation of 152 publications after examining 200 articles) covering the methods for calcium detection and its quantification for coronary and carotid arteries, the pros and cons of these methods, and the risk stratification strategies. The review also presents different kinds of statistical models and gold standard solutions for the evaluation of software systems useful for calcium detection and quantification. Finally, the review concludes with a possible vision for designing the next-generation system for better clinical outcomes.
 
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  Notes MILAB; no proj Approved no  
  Call Number Admin @ si @ BLA2018 Serial 3188  
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Author Giuseppe Pezzano; Oliver Diaz; Vicent Ribas Ripoll; Petia Radeva edit  url
doi  openurl
  Title CoLe-CNN+: Context learning – Convolutional neural network for COVID-19-Ground-Glass-Opacities detection and segmentation Type Journal Article
  Year 2021 Publication Computers in Biology and Medicine Abbreviated Journal (down) CBM  
  Volume 136 Issue Pages 104689  
  Keywords  
  Abstract The most common tool for population-wide COVID-19 identification is the Reverse Transcription-Polymerase Chain Reaction test that detects the presence of the virus in the throat (or sputum) in swab samples. This test has a sensitivity between 59% and 71%. However, this test does not provide precise information regarding the extension of the pulmonary infection. Moreover, it has been proven that through the reading of a computed tomography (CT) scan, a clinician can provide a more complete perspective of the severity of the disease. Therefore, we propose a comprehensive system for fully-automated COVID-19 detection and lesion segmentation from CT scans, powered by deep learning strategies to support decision-making process for the diagnosis of COVID-19.  
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  Notes MILAB; no menciona Approved no  
  Call Number Admin @ si @ PDR2021 Serial 3635  
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