Efficient multilevel scheduling in grids and clouds with dynamic provisioning

Tesis de la Universidad Complutense de Madrid, Facultad de Informática, Departamento de Arquitectura de Computadores y Automática, leída el 12-01-2016La consolidación de las grandes infraestructuras para la Computación Distribuida ha resultado en una plataforma de Computación de Alta Productividad que está lista para grandes cargas de trabajo. Los mejores exponentes de este proceso son las federaciones grid actuales. Por otro lado, la Computación Cloud promete ser más flexible, utilizable, disponible y simple que la Computación Grid, cubriendo además muchas más necesidades computacionales que las requeridas para llevar a cabo cálculos distribuidos. En cualquier caso, debido al dinamismo y la heterogeneidad presente en grids y clouds, encontrar la asignación ideal de las tareas computacionales en los recursos disponibles es, por definición un problema NP-completo, y sólo se pueden encontrar soluciones subóptimas para estos entornos. Sin embargo, la caracterización de estos recursos en ambos tipos de infraestructuras es deficitaria. Los sistemas de información disponibles no proporcionan datos fiables sobre el estado de los recursos, lo cual no permite la planificación avanzada que necesitan los diferentes tipos de aplicaciones distribuidas. Durante la última década esta cuestión no ha sido resuelta para la Computación Grid y las infraestructuras cloud establecidas recientemente presentan el mismo problema. En este marco, los planificadores (brokers) sólo pueden mejorar la productividad de las ejecuciones largas, pero no proporcionan ninguna estimación de su duración. La planificación compleja ha sido abordada tradicionalmente por otras herramientas como los gestores de flujos de trabajo, los auto-planificadores o los sistemas de gestión de producción pertenecientes a ciertas comunidades de investigación. Sin embargo, el bajo rendimiento obtenido con estos mecanismos de asignación anticipada (early-binding) es notorio. Además, la diversidad en los proveedores cloud, la falta de soporte de herramientas de planificación y de interfaces de programación estandarizadas para distribuir la carga de trabajo, dificultan la portabilidad masiva de aplicaciones legadas a los entornos cloud...The consolidation of large Distributed Computing infrastructures has resulted in a High-Throughput Computing platform that is ready for high loads, whose best proponents are the current grid federations. On the other hand, Cloud Computing promises to be more flexible, usable, available and simple than Grid Computing, covering also much more computational needs than the ones required to carry out distributed calculations. In any case, because of the dynamism and heterogeneity that are present in grids and clouds, calculating the best match between computational tasks and resources in an effectively characterised infrastructure is, by definition, an NP-complete problem, and only sub-optimal solutions (schedules) can be found for these environments. Nevertheless, the characterisation of the resources of both kinds of infrastructures is far from being achieved. The available information systems do not provide accurate data about the status of the resources that can allow the advanced scheduling required by the different needs of distributed applications. The issue was not solved during the last decade for grids and the cloud infrastructures recently established have the same problem. In this framework, brokers only can improve the throughput of very long calculations, but do not provide estimations of their duration. Complex scheduling was traditionally tackled by other tools such as workflow managers, self-schedulers and the production management systems of certain research communities. Nevertheless, the low performance achieved by these earlybinding methods is noticeable. Moreover, the diversity of cloud providers and mainly, their lack of standardised programming interfaces and brokering tools to distribute the workload, hinder the massive portability of legacy applications to cloud environments...Depto. de Arquitectura de Computadores y AutomáticaFac. de InformáticaTRUEsubmitte

Trombosis aguda de senos venosos: una causa rara de cefalea perioperatoria. A propósito de un caso.

Cerebral venous sinus thrombosis (CVST) is a rare entity (5 cases per million population) and comprises 0.5%–3% of all cerebral infarctions. It is more frequent in children and young adults, especially in women, during pregnancy and the puerperal period. It has been described associated with different factors, both local and systemic. Clinical manifestations are variable, the most common symptom being headache. CVST is a difficult diagnostic entity due to its multiple forms of presentation. A high index of suspicion is essential to allow early treatment. This article presents a case of a 30-year-old woman, with a personal history of a previously known hypercoagulable state and under hematology follow-up, who presented with venous sinus thrombosis in the immediate postoperative period of a scheduled surgical intervention.La trombosis de los senos venosos cerebrales (TSVC) es una entidad poco frecuente (5 casos por millón de habitantes) y comprende el 0.5%–3% de todos los infartos cerebrales. Es más frecuente en niños y adultos jóvenes, especialmente en mujeres, durante el embarazo y el periodo puerperal. Se ha descrito asociada diferentes factores, tanto locales como sistémicos. Las manifestaciones clínicas son variables, siendo el síntoma más común la cefalea. La TSVC es una entidad de diagnóstico difícil por sus múltiples formas de presentación. Es imprescindible un alto índice de sospecha que permita iniciar precozmente el tratamiento. En este artículo se presenta un caso de una mujer de 30 años, con antecedentes personales de estado de hipercoagulabilidad ya conocido previamente y en seguimiento por hematología, que presenta una trombosis de senos venosos en el postoperatorio inmediato de una intervención quirúrgica programada

Evolution of the maintainability of HPC facilities at CIEMAT headquarters

Desde su creación en 1951, el CIEMAT ha estado impulsando continuamente el uso de la computación como un método de investigación, desplegando plataformas de cómputo innovadoras. De esta manera, arquitecturas vectoriales, MPP, NUMA y otras completamente distribuidas han sido gestionadas en el CIEMAT, acumulando un extenso conocimiento sobre su sostenibilidad y sobre las necesidades de las comunidades científicas relacionadas con proyectos internacionales. Actualmente, la evolución del hardware y el software para HPC es cada vez más rápida e implica un desafío constante para aumentar su disponibilidad debido al número de iniciativas que el centro apoya. Para abordar esta tarea, el equipo TIC ha estado cambiando su gestión hacia un modelo flexible, con una mirada puesta en las adquisiciones futuras.Since its establishment in 1951, CIEMAT has been continuously boosting the use of computation as a research method, deploying innovative computing facilities. Hence, Vectorial, MPP, NUMA, and distributed architectures have been managed at CIEMAT, resulting in an extensive expertise on HPC maintainability as well as on the computational needs of the community related to international projects. Nowadays, the evolution of HPC hardware and software is progressively faster and implies a continuous challenge to increase their availability for the greater number of different initiatives supported. To address this task, the ICT team has been changing towards a flexible management model, with a look toward future acquisitions

A survey of the European Open Science Cloud services for expanding the capacity and capabilities of multidisciplinary scientific applications

Open Science is a paradigm in which scientific data, procedures, tools and results are shared transparently and reused by society as a whole. The initiative known as the European Open Science Cloud (EOSC) is an effort in Europe to provide an open, trusted, virtual and federated computing environment to execute scientific applications, and to store, share and re-use research data across borders and scientific disciplines. Additionally, scientific services are becoming increasingly data-intensive, not only in terms of computationally intensive tasks but also in terms of storage resources. Computing paradigms such as High Performance Computing (HPC) and Cloud Computing are applied to e-science applications to meet these demands. However, adapting applications and services to these paradigms is not a trivial task, commonly requiring a deep knowledge of the underlying technologies, which often constitutes a barrier for its uptake by scientists in general. In this context, EOSC-SYNERGY, a collaborative project involving more than 20 institutions from eight European countries pooling their knowledge and experience to enhance EOSC\u27s capabilities and capacities, aims to bring EOSC closer to the scientific communities. This article provides a summary analysis of the adaptations made in the ten thematic services of EOSC-SYNERGY to embrace this paradigm. These services are grouped into four categories: Earth Observation, Environment, Biomedicine, and Astrophysics. The analysis will lead to the identification of commonalities, best practices and common requirements, regardless of the thematic area of the service. Experience gained from the thematic services could be transferred to new services for the adoption of the EOSC ecosystem framework

Involvement of stanniocalcins in the deregulation of glycaemia in obese mice and type 2 diabetic patients

Las estanniocalcinas se expresan en el tejido del páncreas, y se sugirió una correlación directa entre la insulina circulante y las concentraciones de STC2 en el ser humano. Aquí, mostramos una correlación significativa entre STC1 y tanto la glucemia como la hemoglobina glicosilada entre los pacientes con DM2, mientras que los pacientes con DM2 que presentan los mayores valores de hemoglobina glicosilada exhibieron la menor expresión de STC2. Sin embargo, el tratamiento de los pacientes con fármacos antiglicémicos no modifica significativamente la expresión de ambas STC. Por otra parte, los ratones STC2-/- que mostraron sobrepeso neonatal y adulto presentaron además una glucemia desregulada cuando fueron alimentados con una dieta hipercalórica (pellet de cría, BP). Esta alteración es más evidente en las primeras etapas de la vida animal. La glucemia desregulada en estos ratones se confirmó mediante una prueba oral de glucosa. Además, los ratones STC2-/- presentan un aumento del tamaño del páncreas; así, el análisis histológico revela que los ratones WT responden a la dieta BP aumentando el tamaño de los islotes pancreáticos a través de la inducción de la división celular, y los ratones STC2-/- carecen de este mecanismo compensatorio. Contrariamente, los ratones alimentados con STC2-/- muestran un mayor número de islotes pero de tamaño similar a los alimentados con el pellet regular. El análisis histopatológico demuestra la alteración de la estructura de los tejidos y las infiltraciones de eritrocitos en los ratones STC2-/-, posiblemente debido al estrés evocado por la dieta BP. Por último, se observó una mayor inmunotinción de glucagón en el islote de los ratones STC2-/-, y el ensayo ELISA de glucagón confirmó el aumento del glucagón circulante. En resumen, presentamos pruebas del papel de los STC, principalmente el STC2, como posible marcador temprano durante el desarrollo de la diabetes mellitus.Stanniocalcins are expressed in the pancreas tissue, and it was suggested a direct correlation between circulating insulin and STC2 concentrations in human. Here, we show a significant correlation between STC1 and both glycaemia and glycosylated haemoglobin among DM2 patients, while DM2 patients who present the greatest glycosylated haemoglobin values exhibited the lowest STC2 expression. However, treatment of patients with antiglycaemic drugs does not significantly modify the expression of both STCs. On the other hand, STC2-/- mice that exhibited neonatal and adult overweight further presented deregulated glycaemia when they were feed with a hypercaloric diet (breeding pellet, BP). This alteration is more evident at the early stages of the animal life. Deregulated glycaemia in these mice was confirmed using glucose oral test. In addition, STC2-/- mice present enhanced pancreas size; thus, the histological analysis reveals that WT mice respond to BP diet by increasing the size of the pancreatic islets through inducing cell division, and STC2-/- mice lack this compensatory mechanism. Contrary, BP fed STC2-/- mice show enhanced number of islets but of similar size than those fed with regular pellet. Histopathological analysis demonstrates tissue structure disruption and erythrocytes infiltrations in STC2-/- mice, possibly due to the stress evoked by the BP diet. Finally, enhanced glucagon immunostaining was observed in the islet of STC2-/- mice, and the glucagon ELISA assay confirmed the increase in the circulating glucagon. Summarizing, we present evidence of the role of STCs, mainly STC2, as a possible early marker during development of diabetes mellitus.• Ministerio de Economía y Competitividad. Becas 2013‐45564C2‐1‐P, BFU‐2016‐74932‐C2‐1‐P • Programa Juan de la Cierva. Becas IJCI‐2015‐25665, JC‐2012‐ 2934 • Junta de Extremadura. Beca PRIIB16046peerReviewe

A deletion at Adamts9-magi1 Locus is associated with psoriatic arthritis risk

Objective: Copy number variants (CNVs) have been associated with the risk to develop multiple autoimmune diseases. Our objective was to identify CNVs associated with the risk to develop psoriatic arthritis (PsA) using a genome-wide analysis approach. Methods: A total of 835 patients with PsA and 1498 healthy controls were genotyped for CNVs using the Illumina HumanHap610 BeadChip genotyping platform. Genomic CNVs were characterised using CNstream analysis software and analysed for association using the χ2 test. The most significant genomic CNV associations with PsA risk were independently tested in a validation sample of 1133 patients with PsA and 1831 healthy controls. In order to test for the specificity of the variants with PsA aetiology, we also analysed the association to a cohort of 822 patients with purely cutaneous psoriasis (PsC). Results: A total of 165 common CNVs were identified in the genome-wide analysis. We found a highly significant association of an intergenic deletion between ADAMTS9 and MAGI1 genes on chromosome 3p14.1 (p=0.00014). Using the independent patient and control cohort, we validated the association between ADAMTS9-MAGI1 deletion and PsA risk (p=0.032). Using next-generation sequencing, we characterised the 26 kb associated deletion. Finally, analysing the PsC cohort we found a lower frequency of the deletion compared with the PsA cohort (p=0.0088) and a similar frequency to that of healthy controls (p>0.3). Conclusions: The present genome-wide scan for CNVs associated with PsA risk has identified a new deletion associated with disease risk and which is also differential from PsC risk

The relapsed acute lymphoblastic leukemia network (ReALLNet): a multidisciplinary project from the spanish society of pediatric hematology and oncology (SEHOP)

Acute lymphoblastic leukemia (ALL) is the most common pediatric cancer, with survival rates exceeding 85%. However, 15% of patients will relapse; consequently, their survival rates decrease to below 50%. Therefore, several research and innovation studies are focusing on pediatric relapsed or refractory ALL (R/R ALL). Driven by this context and following the European strategic plan to implement precision medicine equitably, the Relapsed ALL Network (ReALLNet) was launched under the umbrella of SEHOP in 2021, aiming to connect bedside patient care with expert groups in R/R ALL in an interdisciplinary and multicentric network. To achieve this objective, a board consisting of experts in diagnosis, management, preclinical research, and clinical trials has been established. The requirements of treatment centers have been evaluated, and the available oncogenomic and functional study resources have been assessed and organized. A shipping platform has been developed to process samples requiring study derivation, and an integrated diagnostic committee has been established to report results. These biological data, as well as patient outcomes, are collected in a national registry. Additionally, samples from all patients are stored in a biobank. This comprehensive repository of data and samples is expected to foster an environment where preclinical researchers and data scientists can seek to meet the complex needs of this challenging population. This proof of concept aims to demonstrate that a network-based organization, such as that embodied by ReALLNet, provides the ideal niche for the equitable and efficient implementation of “what's next” in the management of children with R/R ALL