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Clementine Decamps; Alexis Arnaud; Florent Petitprez; Mira Ayadi; Aurelia Baures; Lucile Armenoult; Sergio Escalera; Isabelle Guyon; Remy Nicolle; Richard Tomasini; Aurelien de Reynies; Jerome Cros; Yuna Blum; Magali Richard |
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DECONbench: a benchmarking platform dedicated to deconvolution methods for tumor heterogeneity quantification |
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2021 |
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BMC Bioinformatics |
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22 |
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473 |
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Quantification of tumor heterogeneity is essential to better understand cancer progression and to adapt therapeutic treatments to patient specificities. Bioinformatic tools to assess the different cell populations from single-omic datasets as bulk transcriptome or methylome samples have been recently developed, including reference-based and reference-free methods. Improved methods using multi-omic datasets are yet to be developed in the future and the community would need systematic tools to perform a comparative evaluation of these algorithms on controlled data. |
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HUPBA; no proj |
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Admin @ si @ DAP2021 |
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3650 |
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Frederic Sampedro; Anna Domenech; Sergio Escalera |
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Obtaining quantitative global tumoral state indicators based on whole-body PET/CT scans: A breast cancer case study |
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Journal Article |
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2014 |
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Nuclear Medicine Communications |
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NMC |
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35 |
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4 |
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362-371 |
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Objectives: In this work we address the need for the computation of quantitative global tumoral state indicators from oncological whole-body PET/computed tomography scans. The combination of such indicators with other oncological information such as tumor markers or biopsy results would prove useful in oncological decision-making scenarios.
Materials and methods: From an ordering of 100 breast cancer patients on the basis of oncological state through visual analysis by a consensus of nuclear medicine specialists, a set of numerical indicators computed from image analysis of the PET/computed tomography scan is presented, which attempts to summarize a patient’s oncological state in a quantitative manner taking into consideration the total tumor volume, aggressiveness, and spread.
Results: Results obtained by comparative analysis of the proposed indicators with respect to the experts’ evaluation show up to 87% Pearson’s correlation coefficient when providing expert-guided PET metabolic tumor volume segmentation and 64% correlation when using completely automatic image analysis techniques.
Conclusion: Global quantitative tumor information obtained by whole-body PET/CT image analysis can prove useful in clinical nuclear medicine settings and oncological decision-making scenarios. The completely automatic computation of such indicators would improve its impact as time efficiency and specialist independence would be achieved. |
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HuPBA;MILAB |
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SDE2014a |
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2444 |
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Marina Alberti; Simone Balocco; Carlo Gatta; Francesco Ciompi; Oriol Pujol; Joana Silva; Xavier Carrillo; Petia Radeva |
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Automatic Bifurcation Detection in Coronary IVUS Sequences |
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2012 |
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IEEE Transactions on Biomedical Engineering |
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TBME |
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59 |
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4 |
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1022-2031 |
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In this paper, we present a fully automatic method which identifies every bifurcation in an intravascular ultrasound (IVUS) sequence, the corresponding frames, the angular orientation with respect to the IVUS acquisition, and the extension. This goal is reached using a two-level classification scheme: first, a classifier is applied to a set of textural features extracted from each image of a sequence. A comparison among three state-of-the-art discriminative classifiers (AdaBoost, random forest, and support vector machine) is performed to identify the most suitable method for the branching detection task. Second, the results are improved by exploiting contextual information using a multiscale stacked sequential learning scheme. The results are then successively refined using a-priori information about branching dimensions and geometry. The proposed approach provides a robust tool for the quick review of pullback sequences, facilitating the evaluation of the lesion at bifurcation sites. The proposed method reaches an F-Measure score of 86.35%, while the F-Measure scores for inter- and intraobserver variability are 71.63% and 76.18%, respectively. The obtained results are positive. Especially, considering the branching detection task is very challenging, due to high variability in bifurcation dimensions and appearance. |
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0018-9294 |
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MILAB;HuPBA |
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Admin @ si @ ABG2012 |
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1996 |
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Victor Ponce; Mario Gorga; Xavier Baro; Petia Radeva; Sergio Escalera |
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Análisis de la expresión oral y gestual en proyectos fin de carrera vía un sistema de visión artificial |
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2011 |
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ReVisión |
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4 |
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1 |
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La comunicación y expresión oral es una competencia de especial relevancia en el EEES. No obstante, en muchas enseñanzas superiores la puesta en práctica de esta competencia ha sido relegada principalmente a la presentación de proyectos fin de carrera. Dentro de un proyecto de innovación docente, se ha desarrollado una herramienta informática para la extracción de información objetiva para el análisis de la expresión oral y gestual de los alumnos. El objetivo es dar un “feedback” a los estudiantes que les permita mejorar la calidad de sus presentaciones. El prototipo inicial que se presenta en este trabajo permite extraer de forma automática información audiovisual y analizarla mediante técnicas de aprendizaje. El sistema ha sido aplicado a 15 proyectos fin de carrera y 15 exposiciones dentro de una asignatura de cuarto curso. Los resultados obtenidos muestran la viabilidad del sistema para sugerir factores que ayuden tanto en el éxito de la comunicación así como en los criterios de evaluación. |
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1989-1199 |
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HuPBA; MILAB;MV |
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Admin @ si @ PGB2011d |
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2514 |
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Eloi Puertas; Sergio Escalera; Oriol Pujol |
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Generalized Multi-scale Stacked Sequential Learning for Multi-class Classification |
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2015 |
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Pattern Analysis and Applications |
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PAA |
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18 |
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2 |
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247-261 |
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Stacked sequential learning; Multi-scale; Error-correct output codes (ECOC); Contextual classification |
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In many classification problems, neighbor data labels have inherent sequential relationships. Sequential learning algorithms take benefit of these relationships in order to improve generalization. In this paper, we revise the multi-scale sequential learning approach (MSSL) for applying it in the multi-class case (MMSSL). We introduce the error-correcting output codesframework in the MSSL classifiers and propose a formulation for calculating confidence maps from the margins of the base classifiers. In addition, we propose a MMSSL compression approach which reduces the number of features in the extended data set without a loss in performance. The proposed methods are tested on several databases, showing significant performance improvement compared to classical approaches. |
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Springer-Verlag |
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1433-7541 |
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HuPBA;MILAB |
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Admin @ si @ PEP2013 |
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2251 |
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