Design and Implementation of Software Defined Radios on a Homogeneous Multi-Processor Architecture

In the wireless communications domain, multi-mode and multi-standard platforms are becoming increasingly the central focus of system architects. In fact, mobile terminal users require more and more mobility and throughput, pushing towards a fully integrated radio system able to support different communication protocols running concurrently on the platform. A new concept of radio system was introduced to meet the users' expectations. Flexible radio platforms have became an indispensable requirement to meet the expectations of the users today and in the future. This thesis deals with issues related to the design of flexible radio platforms. In particular, the flexibility of the radio system is achieved through the concept of software defined radios (SDRs). The research work focuses on the utilization of homogeneous multi-processor (MP) architectures as a feasible way to efficiently implement SDR platforms. In fact, platforms based on MP architectures are able to deliver high performance together with a high degree of flexibility. Moreover, homogeneous MP platforms are able to reduce design and verification costs as well as provide a high scalability in terms of software and hardware. However, homogeneous MP architectures provide less computational efficiency when compared to heterogeneous solutions. This thesis can be divided into two parts: the first part is related to the implementation of a reference platform while the second part of the thesis introduces the design and implementation of flexible, high performance, power and energy efficient algorithms for wireless communications. The proposed reference platform, Ninesilica, is a homogeneous MP architecture composed of a 3x3 mesh of processing nodes (PNs), interconnected by a hierarchical Network-on-Chip (NoC). Each PN hosts as Processing Element (PE) a processor core. To improve the computational efficiency of the platform, different power and energy saving techniques have been investigated. In the design, implementation and mapping of the algorithms, the following constraints were considered: energy and power efficiency, high scalability of the platform, portability of the solutions across similar platforms, and parallelization efficiency. Ninesilica architecture together with the proposed algorithm implementations showed that homogeneous MP architectures are highly scalable platforms, both in terms of hardware and software. Furthermore, Ninesilica architecture demonstrated that homogeneous MPs are able to achieve high parallelization efficiency as well as high energy and power savings, meeting the requirements of SDRs as well as enabling cognitive radios. Ninesilica can be utilized as a stand-alone block or as an elementary building block to realize clustered many-core architectures. Moreover, the obtained results, in terms of parallelization efficiency as well as power and energy efficiency are independent of the type of PE utilized, ensuring the portability of the results to similar architectures based on a different type of processing element

Design and Implementation of Software Defined Radios on a Homogeneous Multi-Processor Architecture

In the wireless communications domain, multi-mode and multi-standard platforms are becoming increasingly the central focus of system architects. In fact, mobile terminal users require more and more mobility and throughput, pushing towards a fully integrated radio system able to support different communication protocols running concurrently on the platform. A new concept of radio system was introduced to meet the users' expectations. Flexible radio platforms have became an indispensable requirement to meet the expectations of the users today and in the future. This thesis deals with issues related to the design of flexible radio platforms. In particular, the flexibility of the radio system is achieved through the concept of software defined radios (SDRs). The research work focuses on the utilization of homogeneous multi-processor (MP) architectures as a feasible way to efficiently implement SDR platforms. In fact, platforms based on MP architectures are able to deliver high performance together with a high degree of flexibility. Moreover, homogeneous MP platforms are able to reduce design and verification costs as well as provide a high scalability in terms of software and hardware. However, homogeneous MP architectures provide less computational efficiency when compared to heterogeneous solutions. This thesis can be divided into two parts: the first part is related to the implementation of a reference platform while the second part of the thesis introduces the design and implementation of flexible, high performance, power and energy efficient algorithms for wireless communications. The proposed reference platform, Ninesilica, is a homogeneous MP architecture composed of a 3x3 mesh of processing nodes (PNs), interconnected by a hierarchical Network-on-Chip (NoC). Each PN hosts as Processing Element (PE) a processor core. To improve the computational efficiency of the platform, different power and energy saving techniques have been investigated. In the design, implementation and mapping of the algorithms, the following constraints were considered: energy and power efficiency, high scalability of the platform, portability of the solutions across similar platforms, and parallelization efficiency. Ninesilica architecture together with the proposed algorithm implementations showed that homogeneous MP architectures are highly scalable platforms, both in terms of hardware and software. Furthermore, Ninesilica architecture demonstrated that homogeneous MPs are able to achieve high parallelization efficiency as well as high energy and power savings, meeting the requirements of SDRs as well as enabling cognitive radios. Ninesilica can be utilized as a stand-alone block or as an elementary building block to realize clustered many-core architectures. Moreover, the obtained results, in terms of parallelization efficiency as well as power and energy efficiency are independent of the type of PE utilized, ensuring the portability of the results to similar architectures based on a different type of processing element

Marine forests of the Mediterranean-Atlantic Cystoseira tamariscifolia complex show a southern Iberian genetic hotspot and no reproductive isolation in parapatry

Climate-driven range-shifts create evolutionary opportunities for allopatric divergence and subsequent contact, leading to genetic structuration and hybrid zones. We investigate how these processes influenced the evolution of a complex of three closely related Cystoseira spp., which are a key component of the Mediterranean-Atlantic seaweed forests that are undergoing population declines. The C. tamariscifolia complex, composed of C. tamariscifolia s.s., C. amentacea and C. mediterranea, have indistinct boundaries and natural hybridization is suspected. Our aims are to (1) infer the genetic structure and diversity of these species throughout their distribution ranges using microsatellite markers to identify ancient versus recent geographical populations, contact zones and reproductive barriers, and (2) hindcast past distributions using niche models to investigate the influence of past range shifts on genetic divergence at multiple spatial scales. Results supported a single, morphologically plastic species the genetic structure of which was incongruent with a priori species assignments. The low diversity and low singularity in northern European populations suggest recent colonization after the LGM. The southern Iberian genetic hotspot most likely results from the role of this area as a climatic refugium or a secondary contact zone between differentiated populations or both. We hypothesize that life-history traits (selfing, low dispersal) and prior colonization effects, rather than reproductive barriers, might explain the observed genetic discontinuities.Pew Charitable Trusts (USA); MARINERA, Spain [CTM2008-04183-E/MAR]; FCT (Portugal) [FCT-BIODIVERSA/004/2015, CCMAR/Multi/04326/2013, SFRH/BPD/107878/2015, SFRH/BPD/85040/2012]; FPU fellowship of the Spanish Ministry of Education; European Community ASSEMBLE visiting grant [00399/2012]; University of Cadi

Differential Expression Profiling of the Hepatic Proteome in a Rat Model of Dioxin Resistance CORRELATION WITH GENOMIC AND TRANSCRIPTOMIC ANALYSES

One characteristic feature of acute 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) toxicity is dramatic interspecies and interstrain variability in sensitivity. This complicates dioxin risk assessment for humans. However, this variability also provides a means of characterizing mechanisms of dioxin toxicity. Long-Evans (Turku/AB) rats are orders of magnitude more susceptible to TCDD lethality than Han/Wistar (Kuopio) rats, and this difference constitutes a very useful model for identifying mechanisms of dioxin toxicity. We adopted a proteomic approach to identify the differential effects of TCDD exposure on liver protein expression in Han/Wistar rats as compared with Long-Evans rats. This allows determination of which, if any, protein markers are indicative of differences in dioxin susceptibility and/or responsible for conferring resistance. Differential protein expression in total liver protein was assessed using two-dimensional gel electrophoresis, computerized gel image analysis, in-gel digestion, and mass spectrometry. We observed significant changes in the abundance of several proteins, which fall into three general classes: (i) TCDD-independent and exclusively strain-specific (e.g. isoforms of the protein-disulfide isomerase A3, regucalcin, and agmatine ureohydrolase); (ii) strain-independent and only dependent on TCDD exposure (e.g. aldehyde dehydrogenase 3A1 and rat selenium-binding protein 2); (iii) dependent on both TCDD exposure and strain (e.g. oxidative stress-related proteins, apoptosis-inducing factor, and MAWD-binding protein). By integrating transcriptomic (microarray) data and genomic data (computational search of regulatory elements), we found that protein expression levels were mainly controlled at the level of transcription. These results reveal, for the first time, a subset of hepatic proteins that are differentially regulated in response to TCDD in a strain-specific manner. Some of these differential responses may play a role in establishing the major differences in TCDD response between these two strains of rats. As such, our work is expected to lead to new insights into the mechanism of TCDD toxicity and resistance

The interplay of microscopic and mesoscopic structure in complex networks

Not all nodes in a network are created equal. Differences and similarities exist at both individual node and group levels. Disentangling single node from group properties is crucial for network modeling and structural inference. Based on unbiased generative probabilistic exponential random graph models and employing distributive message passing techniques, we present an efficient algorithm that allows one to separate the contributions of individual nodes and groups of nodes to the network structure. This leads to improved detection accuracy of latent class structure in real world data sets compared to models that focus on group structure alone. Furthermore, the inclusion of hitherto neglected group specific effects in models used to assess the statistical significance of small subgraph (motif) distributions in networks may be sufficient to explain most of the observed statistics. We show the predictive power of such generative models in forecasting putative gene-disease associations in the Online Mendelian Inheritance in Man (OMIM) database. The approach is suitable for both directed and undirected uni-partite as well as for bipartite networks

Garlic consumption in relation to colorectal cancer risk and to alterations of blood bacterial DNA

PURPOSE: Garlic consumption has been inversely associated to intestinal adenoma (IA) and colorectal cancer (CRC) risk, although evidence is not consistent. Gut microbiota has been implied in CRC pathogenesis and is also influenced by garlic consumption. We analyzed whether dietary garlic influence CRC risk and bacterial DNA in blood. METHODS: We conducted a case-control study in Italy involving 100 incident CRC cases, 100 IA and 100 healthy controls matched by center, sex and age. We used a validated food frequency questionnaire to assess dietary habits and garlic consumption. Blood bacterial DNA profile was estimated using qPCR and16S rRNA gene profiling. We derived odds ratios (ORs) and the corresponding 95% confidence intervals (CIs) of IA and CRC according to garlic consumption from multiple conditional logistic regression. We used Mann-Whitney and chi-square tests to evaluate taxa differences in abundance and prevalence. RESULTS: The OR of CRC for medium/high versus low/null garlic consumption was 0.27 (95% CI = 0.11-0.66). Differences in garlic consumption were found for selected blood bacterial taxa. Medium/high garlic consumption was associated to an increase of Corynebacteriales order, Nocardiaceae family and Rhodococcus genus, and to a decrease of Family XI and Finegoldia genus. CONCLUSIONS: The study adds data on the protective effect of dietary garlic on CRC risk. Moreover, it supports evidence of a translocation of bacterial material to bloodstream and corroborates the hypothesis of a diet-microbiota axis as a mechanism behind the role of garlic in CRC prevention

参考資料 / 地域連携センタースタッフ紹介

Aims: We investigated the use of the CROSSER catheter, a CTO crossing device based upon high frequency mechanical vibration, as a first resort to treat patients with chronic total occlusions (CTO) while describing angiographic and computed tomography coronary angiography (CTCA) serving as predictors for success. Methods and results: Eighty consecutive patients were enrolled in this prospective multicentre registry of patients treated for a CTO. For 76.3% of the patients, this was the first attempt to open the CTO. Overall success rate was 75%. By conventional coronary angiography, the length of the occlusion was 26.7±14.1 mm and there was a difference in successful vs. unsuccessful cases (24.5±13.9 and 32.8±13.1, p=0.02). The presence of angulation, as defined qualitatively, was more prevalent in failed cases (60.0% vs. 32.2%, p=0.03). The mean ratio CROSSER distance within the occlusion site and length of the occlusion showed a trend towards statistical significance in successful procedures (0.56±0.90 vs. 0.30±0.34, p=0.08). During hospitali- sation, two patients had a non-fatal myocardial infarction. One patient experienced delayed onset of tamponade six hours postprocedure. At 30 days, two patients had PCI in a non-treated vessel and one patient had a transient ischaemic attack. Relation to the CROSSER catheter was inconclusive. Conclusions: The success rate of the use of a dedicated-CTO device -the CROSSER catheter- as a first choice to open a chronic total occlusion was 75%. By multivariate analysis, in a subset of patients that were imaged with computed tomography coronary angiography, the absence of angulation was related with higher success rate

Performance Assessment in Fingerprinting and Multi Component Quantitative NMR Analyses

An interlaboratory comparison (ILC) was organized with the aim to set up quality control indicators suitable for multicomponent quantitative analysis by nuclear magnetic resonance (NMR) spectroscopy. A total of 36 NMR data sets (corresponding to 1260 NMR spectra) were produced by 30 participants using 34 NMR spectrometers. The calibration line method was chosen for the quantification of a five-component model mixture. Results show that quantitative NMR is a robust quantification tool and that 26 out of 36 data sets resulted in statistically equivalent calibration lines for all considered NMR signals. The performance of each laboratory was assessed by means of a new performance index (named Qp-score) which is related to the difference between the experimental and the consensus values of the slope of the calibration lines. Laboratories endowed with a Qp-score falling within the suitable acceptability range are qualified to produce NMR spectra that can be considered statistically equivalent in terms of relative intensities of the signals. In addition, the specific response of nuclei to the experimental excitation/relaxation conditions was addressed by means of the parameter named NR. NR is related to the difference between the theoretical and the consensus slopes of the calibration lines and is specific for each signal produced by a well-defined set of acquisition parameters