Éditeur(s) : HAL CCSD
Résumé : 6 pages
In a Spiking Neural Networks (SNN), spike emissions are sparsely and irregularly distributed both in time and in the network architecture. Since a current feature of SNNs is a low average activity, efficient implementations of SNNs are usually based on an Event-Driven Simulation (EDS). On the other hand, simulations of large scale neural networks can take advantage of distributing the neurons on a set of processors (either workstation cluster or parallel computer). This article presents DAMNED, a large scale SNN simulation framework able to gather the benefits of EDS and parallel computing. Two levels of parallelism are combined: Distributed mapping of the neural topology, at the network level, and local multithreaded allocation of resources for simultaneous processing of events, at the neuron level. Based on the causality of events, a distributed solution is proposed for solving the complex problem of scheduling without synchronization barrier.
https://hal.archives-ouvertes.fr/hal-00015137

hal-00015137
https://hal.archives-ouvertes.fr/hal-00015137
https://hal.archives-ouvertes.fr/hal-00015137v2/document
https://hal.archives-ouvertes.fr/hal-00015137/file/hal_damned.pdf
ARXIV : cs.NE/0512018

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Networks of localized conjugate compactive shear bands with large dihedral angles (corresponding to so-called shear-enhanced compaction bands) were generated in 3-layer plane strain finite-difference models. The central layer has elastic–plastic properties with a small positive internal friction coefficient, negative dilatancy factor, and the hardening modulus reducing during the deformation. The two other layers are elastic. The spatial organization of the networks in the central layer, resulting from the elastic–plastic instability of the 3-layer system, was shown to be dependent on the contrast of the elastic stiffness of the layers and on the friction between them. When the stiffness E of the elastic layers and/or the friction are small, the networks are rather symmetric (the bands of both orientation families are distributed homogeneously within the layer). An increase in E at high friction, results in the clustering of the bands of one orientation along a layer segment which is followed by another segment filled with the bands of the other orientation. Different network types are characterized by different band spacing which is smaller in the clustered networks. The intensity of inelastic deformation and hence of porosity reduction within the bands are also smaller in this case. The obtained band networks are very similar to those in nature where the same variability of the network organization is observed. Available geological and mechanical data confirm the conclusions from the modeling about the origin of this variability.
ISSN: 0040-1951

hal-01116201
https://hal.archives-ouvertes.fr/hal-01116201
DOI : 10.1016/j.tecto.2014.01.021

Éditeur(s) : HAL CCSD
Résumé : International audience
The study of complex biological processes requires to forgo simplified models for extensive ones. Yet, these models' size and complexity place them beyond understanding. Their analysis requires new methods for identifying general patterns. The Transforming Growth Factor TGF-β is a multifunctional cytokine that regulates mammalian cell development , differentiation, and homeostasis. Depending on the context, it can play the antagonistic roles of growth inhibitor or of tumor promoter. Its context-dependent pleiotropic nature is associated with complex sig-naling pathways. The most comprehensive model of TGF-β-dependent signaling is composed of 15,934 chains of reactions (trajectories) linking TGF-β to at least one of its 159 target genes. Identifying functional patterns in such a network requires new automated methods. This article presents a framework for identifying groups of similar trajec-tories composed of the same molecules using an exhaustive and without prior assumptions approach. First, the trajectories were clustered using the Relevant Set Correlation model, a shared nearest-neighbors clustering method. Five groups of trajectories were identified. Second, for each cluster the over-represented molecules were determined by scoring the frequency of each molecule implicated in trajectories. Third, Gene set enrichment analysis on the clusters of trajectories revealed some specific TGF-β-dependent biological processes, with different clusters associated to the antagonists roles of TGF-β. This confirms that our approach yields biologically-relevant results. We developed a web interface that facilitates graph visualization and analysis. Our clustering-based method is suitable for identifying families of functionally-similar trajectories in the TGF-β signaling network. It can be generalized to explore any large-scale biological pathways.
CMSB 2017 - 15th International Conference on Computational Methods in Systems Biology
Darmstadt, France

hal-01559249
https://hal.archives-ouvertes.fr/hal-01559249
https://hal.archives-ouvertes.fr/hal-01559249/document
https://hal.archives-ouvertes.fr/hal-01559249/file/JeanCoquet_CMSB.pdf

Éditeur(s) : HAL CCSD
Résumé : International audience
La recherche de liens conceptuels fréquents (FCL) est une nouvelle approche de clustering de réseaux, qui exploite à la fois la structure et les attributs des noeuds. Bien que les travaux récents se soient déjà intéressés à l’optimisation des algorithmes de recherche des FCL, peu de travaux sont aujourd’hui menés sur la complémentarité qui existe entre les liens conceptuels et l’approche classique de clustering qui consiste en l’extraction de communautés. Ainsi dans ce papier, nous nous intéressons à ces deux approches. Notre objectif est d’évaluer les relations potentiellement existantes entre les communautés et les FCL pour comprendre la façon dont les motifs obtenus par chacune des méthodes peuvent correspondre ou s’intersecter ainsi que la connaissance utile résultant de la prise en compte de ces deux types de connaissance. Nous proposons pour cela un ensemble de mesures originales, basées sur la notion d’homogénéité, visant à évaluer le niveau d’intersection des FCL et des communautés lorsqu’ils sont extraits d’un même jeu de données. Notre approche est appliquée à deux réseaux et démontre l’importance de considérer simultanément plusieurs types de connaissance et leur intersection.
Extraction et gestion des connaissances
Rennes, France

hal-01312560
https://hal.archives-ouvertes.fr/hal-01312560

Éditeur(s) : HAL CCSD
Résumé : International audience
The extraction of knowledge from social networks is an area that has experienced significant growth in recent years. Indeed, thanks to the improvement of storage and calculation capacities, and the heterogeneity of data that can currently be extracted, much effort has been made to go beyond traditional knowledge, by proposing new kinds of patterns that take into account the context. However, while many works were interested in designing new patterns of knowledge or in optimizing existing approaches, few studies have been focused in merging patterns and on the useful knowledge emerging from such fusions. In this work, we focus on two network clustering approaches, able to extract two distinct kinds of patterns, and we seek to understand both the intersections that can exist between them and the knowledge that emerges from their fusion. The first is the classical nodes clustering approach that consists in searching for communities into a network. The second is the search for frequent conceptual links, a new link clustering approach that aims identifying frequent links between groups of nodes sharing common attributes. We propose a set of original measures that aim to evaluate the amount of shared information between these patterns when they are extracted from a same network. These measures are applied to three datasets and demonstrate the interest in simultaneously considering several sources of knowledge.
Advances in Knowledge Discovery and Management (AKDM)

hal-01514227
https://hal.archives-ouvertes.fr/hal-01514227
DOI : 10.1007/978-3-319-45763-5_13

Éditeur(s) : HAL CCSD
Résumé : International audience
In this article, we analyse a collaborative network to understand the underlying patterns that structure the co-writing process of scientific articles. Our goal is to identify and understand the collaboration tendencies from authors publishing activities. For this purpose, we adopt a descriptive modelling through a network approach that consists first in generating the collaborative network from data on publications. Nodes of the network are then enriched with a set of individual attributes extracted from the publishing activity of each author. Finally, we search for conceptual views, a recent link clustering approach, which allows to summarize any kind of networks by highlighting the sets of attributes found frequently linked. Results show that it exists strong tendencies that unconsciously structure the collaboration behaviours. In this paper, we present these tendencies and show how they evolve according to different extraction thresholds.
EEE/ACM International Conference on Advances in Social Networks Analysis and Mining
Sydney, Australia

hal-01637563
https://hal.archives-ouvertes.fr/hal-01637563
DOI : 10.1145/3110025.3110146

Éditeur(s) : HAL CCSD
Résumé : International audience
In this paper we study how to detect anomalies in a distributed manner by using wireless sensor networks (WSN). We focus on a medical context, where existing works generally provide large environments to monitor patients using sensors as simple transducers. Those devices forward sensed health parameters to a main base station. This station collects received data and may perform some computations. In this paper, we perform some distributed tasks on the sensors. We propose a distributed algorithm which allows to raise alarms under some initial rules to alert efficiently medical staff in case of critical situations without needles warnings.
10th IEEE International Symposium on a World of Wireless, Mobile and Multimedia Networks, WOWMOM 2009.
KOS, Greece

hal-00519589
https://hal.archives-ouvertes.fr/hal-00519589

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
These last years, many analysis methods have been proposed to extract knowledge from social networks. As for the traditional data mining domain, these network-based approaches can be classified according to two main families. The approaches based on predictive modelling, which encompass the techniques that analyse current and historical facts to make predictive assumptions about future or unknown events. The approaches based on descriptive modelling, which cover the set of techniques that aim to summarize the data by identifying some relevant features in order to describe how things organize and actually work. In this paper, we review the main descriptive modelling methods of social networks and show for each of them the resulting useful knowledge on a running example. We particularly emphasize on the most recent methods that combine information available on both the network structure and the node attributes in order to provide original description models taking into account the context.
EISSN: 1877-0509

hal-01312383
https://hal.univ-antilles.fr/hal-01312383
DOI : 10.1016/j.procs.2015.05.505

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
From outcrops located in Provence (South-East France), we describe the distribution, the microstructures, and the petrophysical properties of deformation band networks related to both contractional and extensional tectonic events. In contraction, pervasively distributed networks of reverse-sense compactional shear bands are observed in all folded sand units of the foreland, whereas localized networks of clustered reverse-sense shear bands are only observed close to a large-scale thrust. In extensional setting, networks of clustered normal-sense shear bands are generally observed adjacent to map-scale faults (100 m–10 km scale), although some randomly distributed bands are also observed between these faults. Normal-sense cataclastic faults, i.e. zone of deformation bands containing a localized slip-surface, are also observed to be restricted to sand units, suggesting that faults initiated in the sands during extension, but not during contraction. Shear bands and faults show cataclastic microstructures with high-permeability reduction whereas compactional shear bands show crush microbreccia or protocataclastic microstructures with moderate permeability reduction. This basin-scale analysis underlines the major role of tectonic settings (thrust-fault versus normal-fault andersonian-stress regime) and the influence of inherited large-scale faults on the formation/localization of low-permeability shear bands. We also provide a geometrical analysis of the band network properties (spacing, thickness, shear/compaction ratio, degree of cataclasis, petrophysical properties) with respect to the median grain size, porosity and grain sorting of host sand. This analysis suggests that grain size, although less important than stress-state conditions and the presence of large-scale faults, has a non-negligible effect on band network geometry. No correlations are observed between the grain sorting, porosity and band network geometry.
ISSN: 0264-8172

hal-01116421
https://hal.archives-ouvertes.fr/hal-01116421
DOI : 10.1016/j.marpetgeo.2013.12.020

Éditeur(s) : HAL CCSD Springer
Résumé : International audience
Numerous methods have been proposed in order to perform clustering from social networks. While significant works have been carried out on the design of new approaches, able to search for various kinds of clusters, a major challenge concerns the scalability of these approaches. Indeed, given the mass of data that can now be collected from online social networks, particularly from social platforms, it is important to have efficient methods for exploring and analyzing these very large amount of data. One of the recent social network clustering approaches is the extraction of conceptual links, a new approach that performs link clustering by exploiting both the structure of the network and attributes of nodes to identify strong links between groups of nodes in which nodes share common attributes. In this paper, we focus on the optimization of the search for conceptual links. In particular, we propose PALM, a parallel algorithm that aims to improve the efficiency of the extraction by simultaneously exploring several areas of the search space. For this purpose, we begin by demonstrating that the solution space forms a concept lattice. Then, we propose an approach that explores in parallel the branches of the lattice while reducing the search space based on various properties of conceptual links. We demonstrate the efficiency of the algorithm by comparing the performances with the original extraction approach. The results obtained show a significant gain on the computation time.
28th International Conference on Database and Expert Systems Applications (DEXA)
Lyon, France

hal-01637554
https://hal.archives-ouvertes.fr/hal-01637554
DOI : 10.1007/978-3-319-64471-4_21

Éditeur(s) : HAL CCSD
Résumé : 6 pages, 4 figures. In ICML 2013 Workshop on Machine Learning for Bioacoustics
International audience
The work presented in this paper is part of a global framework which long term goal is to design a wireless sensor network able to support the observation of a population of endangered birds. We present the first stage for which we have conducted a knowledge discovery approach on a sample of acoustical data. We use MFCC features extracted from bird songs and we exploit two knowledge discovery techniques. One that relies on clustering-based approaches, that highlights the homogeneity in the songs of the species. The other, based on predictive modeling, that demonstrates the good performances of various machine learning techniques for the identification process. The knowledge elicited provides promising results to consider a widespread study and to elicit guidelines for designing a first version of the automatic approach for data collection based on acoustic sensors.
ICML 2013 Workshop on Machine Learning for Bioacoustics
Atlanta, United States

hal-00840741
https://hal.archives-ouvertes.fr/hal-00840741
ARXIV : 1306.5349

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
To improve earthquake location, we create a 3-D a priori P-wave velocity model (3-DVM) that approximates the large velocity variations of the Ecuadorian subduction system. The 3-DVM is constructed from the integration of geophysical and geological data that depend on the structural geometry and velocity properties of the crust and the upper mantle. In addition, specific station selection is carried out to compensate for the high station density on the Andean Chain. 3-D synthetic experiments are then designed to evaluate the network capacity to recover the event position using only P arrivals and the MAXI technique. Three synthetic earthquake location experiments are proposed: (1) noise-free and (2) noisy arrivals used in the 3-DVM, and (3) noise-free arrivals used in a 1-DVM. Synthetic results indicate that, under the best conditions (exact arrival data set and 3-DVM), the spatiotemporal configuration of the Ecuadorian network can accurately locate 70 per cent of events in the frontal part of the subduction zone (average azimuthal gap is 289° ± 44°). Noisy P arrivals (up to ± 0.3 s) can accurately located 50 per cent of earthquakes. Processing earthquake location within a 1-DVM almost never allows accurate hypocentre position for offshore earthquakes (15 per cent), which highlights the role of using a 3-DVM in subduction zone. For the application to real data, the seismicity distribution from the 3-D-MAXI catalogue is also compared to the determinations obtained in a 1-D-layered VM. In addition to good-quality location uncertainties, the clustering and the depth distribution confirm the 3-D-MAXI catalogue reliability. The pattern of the seismicity distribution (a 13 yr record during the inter-seismic period of the seismic cycle) is compared to the pattern of rupture zone and asperity of the Mw = 7.9 1942 and the Mw = 7.7 1958 events (the Mw = 8.8 1906 asperity patch is not defined). We observe that the nucleation of 1942, 1958 and 1906 events coincides with areas of positive Simple Bouguer anomalies and areas where marine terraces are still preserved on the coastal morphology. From north to south: (1) the 1958 rupture zone is almost aseismic and is attributed to a zone of high coupling; (2) south of the Galera alignment (perpendicular to the trench), the 1942 rupture zone presents moderate seismicity, deeper on the seismogenic interplate zone, and abutting on the Jama cluster (to the south). This cluster is facing the Cabo Pasado cap and positive Bouguer anomalies on the overriding margin. We suspect that this cluster reflects a zone of local asperity (partial coupling). South of the Jama cluster, the spherical aseismic zone in the Bahia area is interpreted as having a low seismic coupling (steady creep motion or slow slip events). We suspect that the site that generated the three M > 7 events (1896, 1956 and 1998) correspond to a small patch of strong coupling. To the south, in the Manta-Puerto Lopez zone, the seismicity is mainly organized in earthquake swarms (1998, 2002, 2005). Although slow slip events have been observed in the area (Vallée et al. submitted), we infer from the coastline shape, the marine terraces and the high positive Bouguer anomalies that the seismicity here might reveal a significant amount of seismic coupling.
ISSN: 0956-540X

hal-00873478
https://hal.archives-ouvertes.fr/hal-00873478
DOI : 10.1093/gji/ggs083

Éditeur(s) : HAL CCSD Wiley
Résumé : Revue de rang A
International audience
This paper studies how to detect anomalies in a distributed manner by using wireless sensor networks (WSNs). We focus on a medical context, where the existing works generally provide large environments to monitor patients using sensors as simple transducers. Those devices forward sensed health parameters to a main base station. This station collects received data and may perform some computations. In this paper, we perform some distributed tasks on the sensors. We propose a distributed algorithm, which allows to raise alarms under some initial rules to alert efficiently medical staff in case of critical situations without needless warnings. Each mote monitors a parameter. When this parameter reaches an abnormal value, the mote communicates with other motes in order to check if it is a ‘local' anomaly or if the patient is in an abnormal situation. In such cases an alarm is raised. We implemented our algorithm over a network of micaZ sensors running under TinyOS. The obtained results show promising perspectives.
ISSN: 1532-0626

hal-00519594
https://hal.archives-ouvertes.fr/hal-00519594
DOI : 10.1002/cpe.1583

Éditeur(s) : HAL CCSD American Physiological Society
Résumé : Full text: http://jn.physiology.org/content/88/3/1475
International audience
The contribution of voltage-gated calcium channels (VGCC) to the development of cultured embryonic cockroach brain neurons was assessed using pharmacological agents. VGCC currents were recorded using the patch-clamp technique and were found to be blocked dose-dependently by micromolar concentrations of mibefradil. The activation and inactivation properties of the calcium channels enable a sizeable calcium current to flow at rest (about -30 and -20 mV in high-potassium culture media). As expected, the cytoplasmic-free calcium concentration was found to rise when the extracellular potassium concentration was raised from 3 to 15 and 30 mM. The effects of VGCC blockers and calcium chelators were different in fresh and in mature cultures in which the neurons were connected to each other to form a defined network. In fresh cultures, the two non-selective VGCC blockers (verapamil and mibefradil) induced a dose-dependent cell death that was proportional to their blocking effect on I(Ba). This effect could not be prevented by addition of fetal calf serum to the culture medium. A similar effect was obtained using intra- or extracellular calcium chelating agents (10 microM BAPTA-AM or 10 mM EGTA). Quite unexpectedly, blockade of the P/Q-like (omega-Aga WA-sensitive) component of the calcium current by 500 nM of omega-AgaTx IVA had no lethal effect, suggesting that the corresponding channels are not involved in the survival mechanism. As expected from their lack of effect on I(Ba), isradipine, nifedipine, and omega-CgTx GVIA did not induce cell death. When the neurons started growing neurites, their sensitivity to calcium channel blockade by mibefradil decreased, indicating a correlation between neurite outgrowth and resistance to calcium depletion. In mature cultures, the neurons became resistant to mibefradil, verapamil, and BAPTA-AM. However, these agents, as well as omega-AgaTx IVA, had a significant inhibitory effect on the increase in diameter of the connectives that linked adjacent clusters of neurons. This effect has been shown to result, in the case of mibefradil, from an inhibition of neurite outgrowth characterized by a significant reduction of the number of primary neurites and secondary branchings but not to a significant modification of the diameter of individual neurites. These results support the view that, as in vertebrates, calcium influx through VGCC plays an important role in survival and neurite outgrowth of cultured embryonic insect neurons. The differential contribution of the P/Q-like and R-like (omega-Aga WA-sensitive) calcium channels in these processes is discussed.
ISSN: 0022-3077

hal-00982287
https://hal.archives-ouvertes.fr/hal-00982287
DOI : 10.1152/jn.00749.2001
PUBMED : 12205168

Éditeur(s) : HAL CCSD Seismological Society of America
Résumé : International audience
We present an improvement of the maximum intersection (MAXI) method in which absolute earthquake location is defined by the maximum intersection number of hyperbolic equal differential time (EDT) volumes (one EDT volume being described as all grid nodes satisfying the arrival‐time differences between two stations, ± a tolerance value known as TERR). This 3D technique is well adapted to a strongly heterogeneous environment, avoids the depth versus origin‐time trade‐off (even using P arrivals alone), and objectively filters possible erroneous arrival times. Improvements consist of introducing an iterative multiscale approach on the TERR parameter and conducting a hierarchy of grid discretization to refine the preliminary solution (multigrid algorithm). The outlier cleaning process is strengthened by conducting statistical analyses based on the number of EDT volume intersections per station, rather than on travel‐time residues. Processing two series of synthetic arrival times computed in the 3D seismological configuration of the southernmost Ryukyu subduction zone, offshore Taiwan, allows us to (1) confirm MAXI robustness, even when arrival times are highly disturbed or azimuthal coverage largely reduced, and (2) show that MAXI, by limiting trade‐offs between origin time and depth and between epicentral position and depth, is less affected by a wrong velocity model than a technique that minimizes travel‐time residues. To conclude, we apply the MAXI method to locate earthquakes recorded by the combined Central Weather Bureau of Taiwan (CWB) and the Japanese Meteorological Agency (JMA) networks (1991-2008) within a georealistic a priori 3D P‐velocity model. Hypocenter determinations are selected based on MAXI confidence factors, and earthquake clustering along well‐known tectonic features witnesses hypocenter determination accuracy.
ISSN: 0037-1106

hal-00725227
https://hal.archives-ouvertes.fr/hal-00725227
DOI : 10.1785/0120100311

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Absolute earthquake hypocenter locations have been determined in the area offshore eastern Taiwan, at the Southernmost Ryukyu subduction zone. Location process is run within a 3D velocity model by combining the Taiwanese and neighboring Japanese networks and using the 3D MAXI technique. The study focuses on the most active seismic cluster in the Taiwan region that occurs in the forearc domain offshore eastern Taiwan. Earthquakes distribute mainly along 2 active planes. The first one aligns along the subduction interface and the second one, shallower affects the overriding margin. Focal mechanisms within the shallow group indicate that nodal planes are either compatible with high-angle back-thrusts or low-angle thrusts. The active seismic deformation exclusively indicates reverse faulting revealing that the forearc basement undergoes trench-perpendicular strong compression. By integrating the seismological image into the regional context, we favor the hypothesis in which the dense seismicity occurring offshore marks the activity of en-échelon high-angle reverse faults accommodating the uplift of a broken piece of Ryukyu Arc basement, called Hoping Basement Rise. The uplift is inferred to be caused by the subduction of an oceanic relief, either exotic block, seamount or oceanic crust sliver. Our favored solution satisfies the narrowness of epicenter's cluster along the Hoping Canyon, and the observation of high-angle active faults on seismic lines crossing the area. Furthermore, this solution is compatible with the active uplift of the Hoping Rise demonstrated from morphological and sedimentological data. We do not exclude the branching of the high-angle reverse faults system onto a splay fault connected with the subduction interface but further investigations are needed to map precisely the 3D distribution of active faults that break the margin.
ISSN: 0040-1951

hal-00407726
https://hal.archives-ouvertes.fr/hal-00407726
DOI : 10.1016/j.tecto.2007.11.018

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Glioblastoma (GB), the most frequent primary tumor of the central nervous system, remains one of the most lethal human cancers despite intensive researches. Current paradigm in the study of GB has been focused on inter-patient variability and on trying to isolate new classification elements or prognostic factors. Here, using ICPL, a technique for protein relative quantification by mass spectrometry, we investigated protein expression between the four regions of GB on clinically relevant biopsies from 5 patients. We identified 584 non-redundant proteins and 31 proteins were found to be up-regulated in the tumor region compared to the peri-tumoral brain tissue, among which, 24 proteins belong to an interaction network linked to 4 biological processes. The core of this network is mainly constituted of interactions between beta-actin (ACTB) with heat shock proteins (HSP90AA1, HSPA8) and 14-3-3 proteins (YWHAZ, YWHAG, YWHAB). A cluster of three isoforms of the sodium pump α-subunit (ATP1A1, ATP1A2, ATP1A3) was also identified outside this network. The differential expression observed for ACTB and 14-3-3γ was further validated by western blot and/or immunohistochemistry. Our study confirms the identity of previously proposed molecular targets, highlights several functional processes altered in GB such as energy metabolism and synaptic transmission and could thus provide added value to new therapeutic trails.
ISSN: 1874-3919

hal-00877756
https://hal.archives-ouvertes.fr/hal-00877756
DOI : 10.1016/j.jprot.2012.04.034
PUBMED : 22575386

Éditeur(s) : HAL CCSD Society for Molecular Biology and Evolution
Résumé : International audience
Although heterokaryons have been reported in nature, multicellular organisms are generally assumed genetically homogeneous. Here, we investigate the case of arbuscular mycorrhizal fungi (AMF) that form symbiosis with plant roots. The growth advantages they confer to their hosts are of great potential benefit to sustainable agricultural practices. However, measuring genetic diversity for these coenocytes is a major challenge: Within the same cytoplasm, AMF contain thousands of nuclei and show extremely high levels of genetic variation for some loci. The extent and physical location of polymorphism within and between AMF genomes is unclear. We used two complementary strategies to estimate genetic diversity in AMF, investigating polymorphism both on a genome scale and in putative single copy loci. First, we used data from whole-genome pyrosequencing of four AMF isolates to describe genetic diversity, based on a conservative network-based clustering approach. AMF isolates showed marked differences in genome-wide diversity patterns in comparison to a panel of control fungal genomes. This clustering approach further allowed us to provide conservative estimates of Rhizophagus spp. genomes sizes. Second, we designed new putative single copy genomic markers, which we investigated by massive parallel amplicon sequencing for two Rhizophagus irregularis and one Rhizophagus sp. isolates. Most loci showed high polymorphism, with up to 103 alleles per marker. This polymorphism could be distributed within or between nuclei. However, we argue that the Rhizophagus isolates under study might be heterokaryotic, at least for the putative single copy markers we studied. Considering that genetic information is the main resource for identification of AMF, we suggest that special attention is warranted for the study of these ecologically important organisms.
ISSN: 1759-6653

Droits : http://creativecommons.org/licenses/by/
hal-01224215
http://hal.upmc.fr/hal-01224215
http://hal.upmc.fr/hal-01224215/document
http://hal.upmc.fr/hal-01224215/file/Genome%20Biol%20Evol-2015-Boon-505-21.pdf
DOI : 10.1093/gbe/evv002

Éditeur(s) : HAL CCSD
Résumé : International audience
We present a study on the optimasation of the number of messages for medical diagnosis over wireless sensors networks (WSNs). We suggest distributed algorithms to diagnosis some diseases while monitoring a patient. Then, we compare the number of messages needed to make a decision between the algorithms. In our approach, each sensor will make some computations in order to participate to the decision. Indeed, some computation and collaboration tasks are performed over the sensors and the final diagnosis is performed in a distributed way. During the experimentation of our algorithms, we used a real data flow extracted from hospital monitoring.
Proceedings of the 14th IEEE Symposium on Computers and Communications (ISCC 2009), July 5-8, Sousse, Tunisia
Sousse, Tunisia

hal-00519593
https://hal.archives-ouvertes.fr/hal-00519593

Éditeur(s) : HAL CCSD
Résumé : National audience
Traditional network generation models attempt to replicate global structural properties (degree distribution, average distance, clustering coefficient, communities, etc.) through synthetic link formation mechanisms such as triadic closure or preferential attachment. In this work, we study the evolution of a very big communication network coming from mobile telephony and we analyse the link formation process. A first study conducted on the standard mechanisms allows observing that several mechanisms are responsible for the properties observed in this network. In a second study, we characterize more precisely the link formation process by searching for correlations between the probability of creating a new link and some individual properties such as the degree, the clustering coefficient and the age of the nodes.
Conférence sur les modèles et l'analyse des réseaux : Approches mathématiques et informatiques
Saint-Etienne, France

hal-00873990
https://hal.archives-ouvertes.fr/hal-00873990