Bootstrap testing for cross-correlation under low firing activity

A new cross-correlation synchrony index for neural activity is proposed. The index is based on the integration of the kernel estimation of the cross-correlation function. It is used to test for the dynamic synchronization levels of spontaneous neural activity under two induced brain states: sleep-like and awake-like. Two bootstrap resampling plans are proposed to approximate the distribution of the test statistics. The results of the first bootstrap method indicate that it is useful to discern significant differences in the synchronization dynamics of brain states characterized by a neural activity with low firing rate. The second bootstrap method is useful to unveil subtle differences in the synchronization levels of the awake-like state, depending on the activation pathway.Comment: 22 pages, 7 figure

Recent Advances Concerning Certain Class of Geophysical Flows

This paper is devoted to reviewing several recent developments concerning certain class of geophysical models, including the primitive equations (PEs) of atmospheric and oceanic dynamics and a tropical atmosphere model. The PEs for large-scale oceanic and atmospheric dynamics are derived from the Navier-Stokes equations coupled to the heat convection by adopting the Boussinesq and hydrostatic approximations, while the tropical atmosphere model considered here is a nonlinear interaction system between the barotropic mode and the first baroclinic mode of the tropical atmosphere with moisture. We are mainly concerned with the global well-posedness of strong solutions to these systems, with full or partial viscosity, as well as certain singular perturbation small parameter limits related to these systems, including the small aspect ratio limit from the Navier-Stokes equations to the PEs, and a small relaxation-parameter in the tropical atmosphere model. These limits provide a rigorous justification to the hydrostatic balance in the PEs, and to the relaxation limit of the tropical atmosphere model, respectively. Some conditional uniqueness of weak solutions, and the global well-posedness of weak solutions with certain class of discontinuous initial data, to the PEs are also presented.Comment: arXiv admin note: text overlap with arXiv:1507.0523

IberWQ: A GPU Accelerated Tool for 2D Water Quality Modeling in Rivers and Estuaries

Este artigo inclúese no número especial "Modelling Flow, Water Quality, and Sediment Transport Processes in Coastal, Estuarine, and Inland Waters"[Abstract] Numerical models are useful tools to analyze water quality by computing the concentration of physical, chemical and biological parameters. The present work introduces a two-dimensional depth-averaged model that computes the most relevant and frequent parameters used to evaluate water quality. High performance computing (HPC) techniques based on graphic processing unit (GPU) parallelization have been applied to improve the efficiency of the package, providing speed-ups of two orders of magnitude in a standard PC. Several test cases were analyzed to show the capabilities and efficiency of the model to evaluate the environmental status of rivers and non-stratified estuaries. IberWQ will be freely available through the package Iber.European Commission; INTERREG-POCTEP; 0034_RISC_ML_6_EXunta de Galicia; ED431C 2017/64-GRCXunta de Galicia; ED481A-2017/31

An accelerated tool for flood modelling based on Iber

Este artigo inclúese no número especial "Selected Papers from the 1st International Electronic Conference on the Hydrological Cycle (ChyCle-2017)"[Abstract:] This paper presents Iber+, a new parallel code based on the numerical model Iber for two-dimensional (2D) flood inundation modelling. The new implementation, which is coded in C++ and takes advantage of the parallelization functionalities both on CPUs (central processing units) and GPUs (graphics processing units), was validated using different benchmark cases and compared, in terms of numerical output and computational efficiency, with other well-known hydraulic software packages. Depending on the complexity of the specific test case, the new parallel implementation can achieve speedups up to two orders of magnitude when compared with the standard version. The speedup is especially remarkable for the GPU parallelization that uses Nvidia CUDA (compute unified device architecture). The efficiency is as good as the one provided by some of the most popular hydraulic models. We also present the application of Iber+ to model an extreme flash flood that took place in the Spanish Pyrenees in October 2012. The new implementation was used to simulate 24 h of real time in roughly eight minutes of computing time, while the standard version needed more than 15 h. This huge improvement in computational efficiency opens up the possibility of using the code for real-time forecasting of flood events in early-warning systems, in order to help decision making under hazardous events that need a fast intervention to deploy countermeasures.Water JPI—WaterWorks Programme, project Improving Drought and Flood Early Warning, Forecasting and Mitigation, IMDROFLOOD; PCIN-2015-243European Commission; project RISC_ML 034_RISC_ML_6_EXunta de Galicia; ED431C 2017/64-GRCXunta de Galicia; ED481A-2017/314Xunta de Galicia; ED481B-2018/020European Commission; IMDROFLOOD PCIN-2015-24

Increased p53 gene dosage reduces neointimal thickening induced by mechanical injury but has no effect on native atherosclerosis

This is a pre-copy-editing, author-produced PDF of an article accepted for publication in Cardiovascular Research following peer review. The definitive publisher-authenticated version Cardiovasc Res. 75 (4):803-12. is available online at: http://cardiovascres.oxfordjournals.org/cgi/content/full/75/4/803OBJECTIVE: The tumor suppressor p53 regulates cell proliferation and apoptosis, two key processes in the pathogenesis of occlusive vascular disease. Here, we examined the consequences of heightening p53 function on neointimal lesion formation in the setting of atherosclerosis and mechanical injury. METHODS: (1) Immunohistopathological characterization of neointimal lesions in atherosclerosis-prone apolipoprotein E-null mice with normal p53 gene dosage (apoEKO) and carrying a p53 transgene (Super-p53/apoE-KO); (2) molecular studies in macrophages and smooth muscle cells (SMCs) obtained from these mice. RESULTS: The p53 transgene conferred p53 gain-of-function in cultured cells and mice. In vitro, survival of irradiated Super-p53 macrophages and femoral SMCs was reduced, but only Super-p53 SMCs exhibited attenuated proliferation. In vivo, whereas the size of spontaneously formed and diet-induced aortic atheromas was undistinguishable in apoE-KO and Super-p53/apoE-KO mice, the latter exhibited attenuated neointimal thickening in mechanically-injured femoral artery. In both models, neither apoptosis nor cell proliferation were affected by additional p53 gene dosage when examined in established neointimal lesions. However, at 2 days after mechanical injury when neointimal lesions were not formed yet, cell proliferation was significantly attenuated within medial SMCs of Super-p53/apoEKO mice. CONCLUSION: Heightening p53 function has differential effects on in vitro proliferation of macrophages (unaffected) versus SMCs (reduced), and on native atherosclerosis (unaffected) versus mechanically-induced neointimal thickening (reduced) in apoE-KO mice. The protective effect of p53 in mechanically-injured femoral artery coincided with limited medial SMC proliferation at early time points preceding neointima formation, but neither medial nor neointimal cell proliferation was affected in vessels with established occlusive lesions. These findings corroborate p53 gain-of-function as a promising therapeutic strategy to limit post-angioplasty restenosis but not native atherosclerosis.Work financed by grants from Ministerio de Sanidad y Consumo/Instituto de Salud Carlos III (Red Temática de Investigación Cooperativa en Enfermedades Cardiovasculares, RECAVA), from the Regional Government of Valencia (GV04B-288) and from Ministerio de Educación y Ciencia and the European Regional Development Fund (SAF2004-03057). S.M.S.-G. and J.M.G received salary support from Instituto de Salud Carlos III, and J.J.F. from CSIC-I3P predoctoral fellowship program cosponsored by the European Social Fund.Peer reviewe

The Rivillas flood of 5–6 November 1997 (Badajoz, Spain) revisited: an approach based on Iber+ modelling

Financiado para publicación en acceso aberto: Universidade de Vigo/CISUGThe flash flood registered in November 1997 in the city of Badajoz (Spain) in the basin of Rivillas river is analysed by means of the numerical code Iber+. This event constitutes one of the most destructive flash-floods registered in an urban area in the Iberian Peninsula. Starting from precipitation data obtained from rain stations, the runoff of the entire river basin was simulated to obtain the discharge of the Rivillas river in Badajoz. The flood maps obtained with Iber+ reproduce accurately the field data registered during the actual event. Likewise, the numerical time evolution of the flood and water depths are in accordance with testimonies of the witnesses. Once the capability of Iber+ to reproduce the event was assessed, several scenarios were considered in order to analyse the main causes of the event. In particular, simulations show that the catastrophic magnitude of the flood was mainly due to the blockage of bridges. Different hypothetical scenarios were simulated to analyze the role of rain intensity and bridge maintenance, concluding that similar floods can occur under much lower rainfall but with poor bridge maintenance.Xunta de Galicia | Ref. ED431C 2021/44Xunta de Galicia | Ref. ED481B-2021-10

Numerical simulation of the deadliest flood event of Portugal: Unravelling the causes of the disaster

The flood event of November 25 and 26, 1967 corresponds to the deadliest storm affecting Portugal in recent centuries being responsible for >500 fatalities. The main trigger was the heavy rain that fell in just a few hours, provoking a rapid increase in river flows, although other concurrent circumstances had to occur to reach the dramatic water levels estimated in some affected places. However, even today, several important uncertainties related to water levels achieved and timing of floods remain. Here we aim to clarify some of the pending issues by applying suitable high performance numerical tools to elucidate the main conditioning factors that played a key role in the intensification of this dramatic flood. In particular, the analysis has been focused on Quintas village, the location most affected, where >100 fatalities were recorded, close to 2/3 of its total population at the time. The main conclusion provided by the numerical simulations was that a plugging of water flow downstream of Quintas village, favoured by a poor terrain maintenance coupled with the bottleneck created by topographic features, caused the critical over-elevation of water levels. Simulations also corroborate the rapid increase in water levels in Quintas village, with an estimated rise of >2 m in just two hours, as well as the occurrence of the flood during the night, preventing many people to be aware of the extreme danger they were facing and safeguarding themselves.Universidade de Vigo/CISU

Molecular epidemiology of an enterovirus A71 outbreak associated with severe neurological disease, Spain, 2016

Altres ajuts: We wish to thank I Bustillo, H del Pozo and P Higueras for their technical assistance. We also sincerely wish to thank all technical staff from microbiology departments and medical staff from paediatrics departments from all participating hospitals. Some of the samples are included in an ongoing project (PI15CIII-00020) which was supported by a grant by the Health Research System (AES).Introduction: Enterovirus A71 (EV-A71) is an emerging pathogen that causes a wide range of disorders including severe neurological manifestations. In the past 20 years, this virus has been associated with large outbreaks of hand, foot and mouth disease with neurological complications in the Asia-Pacific region, while in Europe mainly sporadic cases have been reported. In spring 2016, however, an EV-A71 outbreak associated with severe neurological cases was reported in Catalonia and spread further to other Spanish regions. Aim: Our objective was to investigate the epidemiology and clinical characteristics of the outbreak. Methods: We carried out a retrospective study which included 233 EV-A71-positive samples collected during 2016 from hospitalised patients. We analysed the clinical manifestations associated with EV-A71 infections and performed phylogenetic analyses of the 3'-VP1 and 3Dpol regions from all Spanish strains and a set of EV-A71 from other countries. Results: Most EV-A71 infections were reported in children (mean age: 2.6 years) and the highest incidence was between May and July 2016 (83%). Most isolates (218/233) were classified as subgenogroup C1 and 217 of them were grouped in one cluster phylogenetically related to a new recombinant variant strain associated with severe neurological diseases in Germany and France in 2015 and 2016. Moreover, we found a clear association of EV-A71-C1 infection with severe neurological disorders, brainstem encephalitis being the most commonly reported. Conclusion: An emerging recombinant variant of EV-A71-C1 was responsible for the large outbreak in 2016 in Spain that was associated with many severe neurological cases