B2G4: A synthetic data pipeline for the integration of Blender models in Geant4 simulation toolkit

The correctness and precision of particle physics simulation software, such as Geant4, is expected to yield results that closely align with real-world observations or well-established theoretical predictions. Notably, the accuracy of these simulated outcomes is contingent upon the software's capacity to encapsulate detailed attributes, including its prowess in generating or incorporating complex geometrical constructs. While the imperatives of precision and accuracy are essential in these simulations, the need to manually code highly detailed geometries emerges as a salient bottleneck in developing software-driven physics simulations. This research proposes Blender-to-Geant4 (B2G4), a modular data workflow that utilizes Blender to create 3D scenes, which can be exported as geometry input for Geant4. B2G4 offers a range of tools to streamline the creation of simulation scenes with multiple complex geometries and realistic material properties. Here, we demonstrate the use of B2G4 in a muon scattering tomography application to image the interior of a sealed steel structure. The modularity of B2G4 paves the way for the designed scenes and tools to be embedded not only in Geant4, but in other scientific applications or simulation software.Comment: submitted for review at the Muographers 2023 conference. Initial version. 6 pages, 4 figure

Look ATME: The Discriminator Mean Entropy Needs Attention

Generative adversarial networks (GANs) are successfully used for image synthesis but are known to face instability during training. In contrast, probabilistic diffusion models (DMs) are stable and generate high-quality images, at the cost of an expensive sampling procedure. In this paper, we introduce a simple method to allow GANs to stably converge to their theoretical optimum, while bringing in the denoising machinery from DMs. These models are combined into a simpler model (ATME) that only requires a forward pass during inference, making predictions cheaper and more accurate than DMs and popular GANs. ATME breaks an information asymmetry existing in most GAN models in which the discriminator has spatial knowledge of where the generator is failing. To restore the information symmetry, the generator is endowed with knowledge of the entropic state of the discriminator, which is leveraged to allow the adversarial game to converge towards equilibrium. We demonstrate the power of our method in several image-to-image translation tasks, showing superior performance than state-of-the-art methods at a lesser cost. Code is available at https://github.com/DLR-MI/atmeComment: Accepted for the CVPR 2023 Workshop on Generative Models for Computer Vision, https://generative-vision.github.io/workshop-CVPR-23

Improving YOLOv8 with Scattering Transform and Attention for Maritime Awareness

Ship recognition and georeferencing using monitoring cameras are crucial to many applications in maritime situational awareness. Although deep learning algorithms are available for ship recognition tasks, there is a need for innovative approaches that attain higher precision rates irrespective of ship sizes, types, or physical hardware limitations. Furthermore, their deployment in maritime environments requires embedded systems capable of image processing, with balanced accuracy, reduced latency and low energy consumption. To achieve that, we build upon the foundations of the standard YOLOv8 and present a novel architecture that improves the segmentation and georeferencing of ships in the context of maritime awareness using a real-world dataset (ShipSG). Our architecture synergizes global and local features in the image for improved ship segmentation and georeferencing. The 2D scattering-transform enhances the YOLOv8 backbone by extracting global structural features from the image. The addition of convolutional block attention module (CBAM) in the head allows focusing on relevant spatial and channel-wise regions. We achieve mAP of 75.46%, comparable to larger YOLOv8 models at a much faster inference speed, 59.3 milliseconds per image, when deployed on the NVIDIA Jetson Xavier AGX as target embedded system. We applied the modified network to georeference the segmented ship masks, with a georeferencing distance error of 18 meters, which implies comparable georeferencing performance to non-embedded approaches

Look ATME: The Discriminator Mean Entropy Needs Attention

Generative adversarial networks (GANs) are successfully used for image synthesis but are known to face instability during training. In contrast, probabilistic diffusion models (DMs) are stable and generate high-quality images, at the cost of an expensive sampling procedure. In this paper, we introduce a simple method to allow GANs to stably converge to their theoretical optimum, while bringing in the denoising machinery from DMs. These models are combined into a simpler model (ATME) that only requires a forward pass during inference, making predictions cheaper and more accurate than DMs and popular GANs. ATME breaks an information asymmetry existing in most GAN models in which the discriminator has spatial knowledge of where the generator is failing. To restore the information symmetry, the generator is endowed with knowledge of the entropic state of the discriminator, which is leveraged to allow the adversarial game to converge towards equilibrium. We demonstrate the power of our method in several image-to-image translation tasks, showing superior performance than state-of-the-art methods at a lesser cost. Code is available at https://github.com/DLR-MI/atme

Noninvasive early detection of colorectal cancer by hypermethylation of the LINC00473 promoter in plasma cell-free DNA

Background Current noninvasive assays have limitations in the early detection of colorectal cancer. We evaluated the clinical utility of promoter methylation of the long noncoding RNA LINC00473 as a noninvasive biomarker to detect colorectal cancer and associated precancerous lesions. Methods We evaluated the epigenetic regulation of LINC00473 through promoter hypermethylation in colorectal cancer cell lines using bisulfite genomic sequencing and expression analyses. DNA methylation of LINC00473 was analyzed in primary colorectal tumors using 450K arrays and RNA-seq from The Cancer Genome Atlas (TCGA). Tissue-based findings were validated in several independent cohorts of colorectal cancer and advanced colorectal polyp patients by pyrosequencing. We explored the clinical utility of LINC00473 methylation for the early detection of colorectal cancer in plasma cell-free DNA by quantitative methylation-specific PCR and droplet digital PCR. Results LINC00473 showed transcriptionally silencing due to promoter hypermethylation in colorectal cancer cell lines and primary tumors. Methylation of the LINC00473 promoter accurately detected primary colorectal tumors in two independent clinical cohorts, with areas under the receiver operating characteristic curves (AUCs) of 0.94 and 0.89. This biomarker also identified advanced colorectal polyps from two other tissue-based clinical cohorts with high diagnostic accuracy (AUCs of 0.99 and 0.78). Finally, methylation analysis of the LINC00473 promoter in plasma cell-free DNA accurately identified patients with colorectal cancer and advanced colorectal polyps (AUCs of 0.88 and 0.84, respectively), which was confirmed in an independent cohort of patients. Conclusions Hypermethylation of the LINC00473 promoter is a new promising biomarker for noninvasive early detection of colorectal cancer and related precancerous lesions

The 2nd Workshop on Maritime Computer Vision (MaCVi) 2024

The 2nd Workshop on Maritime Computer Vision (MaCVi) 2024 addresses maritime computer vision for Unmanned Aerial Vehicles (UAV) and Unmanned Surface Vehicles (USV). Three challenges categories are considered: (i) UAV-based Maritime Object Tracking with Re-identification, (ii) USV-based Maritime Obstacle Segmentation and Detection, (iii) USV-based Maritime Boat Tracking. The USV-based Maritime Obstacle Segmentation and Detection features three sub-challenges, including a new embedded challenge addressing efficicent inference on real-world embedded devices. This report offers a comprehensive overview of the findings from the challenges. We provide both statistical and qualitative analyses, evaluating trends from over 195 submissions. All datasets, evaluation code, and the leaderboard are available to the public at https://macvi.org/workshop/macvi24.Comment: Part of 2nd Workshop on Maritime Computer Vision (MaCVi) 2024 IEEE Xplore submission as part of WACV 202

Novel genes and sex differences in COVID-19 severity

[EN] Here, we describe the results of a genome-wide study conducted in 11 939 coronavirus disease 2019 (COVID-19) positive cases with an extensive clinical information that were recruited from 34 hospitals across Spain (SCOURGE consortium). In sex-disaggregated genome-wide association studies for COVID-19 hospitalization, genome-wide significance (P < 5 × 10−8) was crossed for variants in 3p21.31 and 21q22.11 loci only among males (P = 1.3 × 10−22 and P = 8.1 × 10−12, respectively), and for variants in 9q21.32 near TLE1 only among females (P = 4.4 × 10−8). In a second phase, results were combined with an independent Spanish cohort (1598 COVID-19 cases and 1068 population controls), revealing in the overall analysis two novel risk loci in 9p13.3 and 19q13.12, with fine-mapping prioritized variants functionally associated with AQP3 (P = 2.7 × 10−8) and ARHGAP33 (P = 1.3 × 10−8), respectively. The meta-analysis of both phases with four European studies stratified by sex from the Host Genetics Initiative (HGI) confirmed the association of the 3p21.31 and 21q22.11 loci predominantly in males and replicated a recently reported variant in 11p13 (ELF5, P = 4.1 × 10−8). Six of the COVID-19 HGI discovered loci were replicated and an HGI-based genetic risk score predicted the severity strata in SCOURGE. We also found more SNP-heritability and larger heritability differences by age (<60 or ≥60 years) among males than among females. Parallel genome-wide screening of inbreeding depression in SCOURGE also showed an effect of homozygosity in COVID-19 hospitalization and severity and this effect was stronger among older males. In summary, new candidate genes for COVID-19 severity and evidence supporting genetic disparities among sexes are provided.S

The evolution of the ventilatory ratio is a prognostic factor in mechanically ventilated COVID-19 ARDS patients

Background: Mortality due to COVID-19 is high, especially in patients requiring mechanical ventilation. The purpose of the study is to investigate associations between mortality and variables measured during the first three days of mechanical ventilation in patients with COVID-19 intubated at ICU admission. Methods: Multicenter, observational, cohort study includes consecutive patients with COVID-19 admitted to 44 Spanish ICUs between February 25 and July 31, 2020, who required intubation at ICU admission and mechanical ventilation for more than three days. We collected demographic and clinical data prior to admission; information about clinical evolution at days 1 and 3 of mechanical ventilation; and outcomes. Results: Of the 2,095 patients with COVID-19 admitted to the ICU, 1,118 (53.3%) were intubated at day 1 and remained under mechanical ventilation at day three. From days 1 to 3, PaO2/FiO2 increased from 115.6 [80.0-171.2] to 180.0 [135.4-227.9] mmHg and the ventilatory ratio from 1.73 [1.33-2.25] to 1.96 [1.61-2.40]. In-hospital mortality was 38.7%. A higher increase between ICU admission and day 3 in the ventilatory ratio (OR 1.04 [CI 1.01-1.07], p = 0.030) and creatinine levels (OR 1.05 [CI 1.01-1.09], p = 0.005) and a lower increase in platelet counts (OR 0.96 [CI 0.93-1.00], p = 0.037) were independently associated with a higher risk of death. No association between mortality and the PaO2/FiO2 variation was observed (OR 0.99 [CI 0.95 to 1.02], p = 0.47). Conclusions: Higher ventilatory ratio and its increase at day 3 is associated with mortality in patients with COVID-19 receiving mechanical ventilation at ICU admission. No association was found in the PaO2/FiO2 variation

Ciencias Sociales: Economía y Humanidades

Este volumen I contiene 29 capítulos arbitrados que se ocupan de estos asuntos en Tópicos Selectos de Ciencias Sociales: Economía y Humanidades, elegidos de entre las contribuciones, reunimos algunos investigadores y estudiantes.Gómez, presenta un breve examen de la producción y comercialización de rosa en México; Arpi y Portillo realiza un estudio en México sobre el ingreso mínimo de las familias que identifica la línea de pobreza alimentaria en el área rural del sur de México, 2012; Bravo realiza un pequeño estudio donde hablará sobre el análisis comparado del Sector Gubernamental y la Economía Mexicana desde la perspectiva de los eslabonamientos productivos Hirshman-Rasmuss; Caamal, Pat, Jerónimo y Romero realizan un estudio sobre los canales de comercialización de limón persa en el municipio de Martínez de la Torre, Veracruz; Macías y Perales nos hablarán sobre una análisis del comercio estratégico en el TLCAN: El Estado en la política agrícola de biocombustibles; Figueroa, Pérez y Godínez se expresan acerca de la importancia de la comercialización del café en México; Sepúlveda, Sepúlveda y Pérez realizan un diagnóstico, retos del comercio electrónico en el Sector Agroindustrial Mexicano; Duana mediante su trabajo nos muestra y habla sobre la inversión extranjera directa y su impacto en crecimiento de México, un análisis en prospectiva: 1999-2010; Figueroa, Pérez y Ramírez hacen un estudio acerca sobre la importancia de la Banca en México; Pérez, Figueroa, Godínez y Pérez presenta un trabajo acerca de la competitividad de la producción agrícola en México, un análisis regional; Rodríguez, Espinosa y Márquez analizan todo acerca de el SIAL productor de quesos en Poxtla, competividad y territorio; Garza nos habla acerca de la intermediación financiera al servicio de la comunidad indígena: el fondo regional indígena Tarhiata Keri; Arroyo, Aguilar, Santoyo y Muñoz realizan un estudio acerca de la demanda de Importaciones de durazno (Prunus pérsica L. Batsch) en México procedentes de Estados Unidos de América (1982-2011); Loera y Sepúlveda analizan los parámetros de la productividad forestal en la producción de madera en rollo; Pérez, Morett y Tecpan realizan un análisis de factores sociales, ambientales y económicos del territorio rural cercano a la ciudad de México; Godínez, Figueroa y Pérez realizan un estudio acerca de la crisis económica mundial y su efecto sobre los flujos migratorios de América Latina; Magadán, Hernández y Escalona presentan la tipología de los sujetos sociales que intervienen en el mercado campesino de Ocotlán Oaxaca; Tavera y Cobos nos hablan de la normalización del proceso de compostaje: una opción para desarrollar el mercado de la composta; Piña y Pérez hablan acerca de la reestructuración del capitalismo y crisis política en México; Gonzáles, Rucoba y Ramírez realizan un estudio de la rentabilidad de la producción de miel en el municipio de León, Guanjuato; Ramírez, Gutiérrez y Figueroa realizan un estudio acerca de la economía del maíz en la región metropolitana, Chiapas, 2014; Bueno, Méndez y Cruz realizan un estudio y análisis de los centros de educación y cultura ambiental, necesidad de profesionalización Pedagógica de facilitadores ambientales; Pat, Caamal, Jerónimo y Mendoza presentan un estudio acerca de los Costos y competitividad de la producción del limón persa en el municipio de Martínez de la Torre, Veracruz. Vizuet presenta un trabajo de la construcción polisémica e histórica del concepto de la pobreza; Navarrete, Ríos y Arévalo presentan un estudio acerca de la producción ejidal de tomate rojo (Lycopersicum esculentum) en el DR-017, y su huella hídrica; Pérez y Piña hablan acerca de la productividad e inversión extranjera: La industria de Alimentos; Pérez, Figueroa, Godínez y Gómez presentan el trabajo sobre el sector primario en México; Pérez, Figueroa, Godínez y Gómez presentan acerca de los subsidios al campo como instrumento de política económica en México; Venegas, Perales y Del Valle realizan un estudio de rentabilidad de biodigestores y motogeneradores para diferentes tamaños de granjas porcinas en Michoacán

CIBERER : Spanish national network for research on rare diseases: A highly productive collaborative initiative

Altres ajuts: Instituto de Salud Carlos III (ISCIII); Ministerio de Ciencia e Innovación.CIBER (Center for Biomedical Network Research; Centro de Investigación Biomédica En Red) is a public national consortium created in 2006 under the umbrella of the Spanish National Institute of Health Carlos III (ISCIII). This innovative research structure comprises 11 different specific areas dedicated to the main public health priorities in the National Health System. CIBERER, the thematic area of CIBER focused on rare diseases (RDs) currently consists of 75 research groups belonging to universities, research centers, and hospitals of the entire country. CIBERER's mission is to be a center prioritizing and favoring collaboration and cooperation between biomedical and clinical research groups, with special emphasis on the aspects of genetic, molecular, biochemical, and cellular research of RDs. This research is the basis for providing new tools for the diagnosis and therapy of low-prevalence diseases, in line with the International Rare Diseases Research Consortium (IRDiRC) objectives, thus favoring translational research between the scientific environment of the laboratory and the clinical setting of health centers. In this article, we intend to review CIBERER's 15-year journey and summarize the main results obtained in terms of internationalization, scientific production, contributions toward the discovery of new therapies and novel genes associated to diseases, cooperation with patients' associations and many other topics related to RD research