147 research outputs found
Dynamic Arc-Flags in Road Networks
International audienceIn this work we introduce a new data structure, named Road-Signs, which allows us to efficiently update the Arc-Flags of a graph in a dynamic scenario. Road-Signs can be used to compute Arc-Flags, can be efficiently updated and do not require large space consumption for many real-world graphs like, e.g., graphs arising from road networks. In detail, we define an algorithm to preprocess Road-Signs and an algorithm to update them each time that a weight increase operation occurs on an edge of the network. We also experimentally analyze the proposed algorithms in real-world road networks showing that they yields a significant speed-up in the updating phase of Arc-Flags, at the cost of a very small space and time overhead in the preprocessing phase
Fully Dynamic Maintenance of Arc-Flags in Road Networks
International audienceThe problem of finding best routes in road networks can be solved by applying Dijkstra's shortest paths algorithm. Unfortunately, road networks deriving from real-world applications are huge yielding unsustainable times to compute shortest paths. For this reason, great research efforts have been done to accelerate Dijkstra's algorithm on road networks. These efforts have led to the development of a number of speed-up techniques, as for example Arc-Flags, whose aim is to compute additional data in a preprocessing phase in order to accelerate the shortest paths queries in an on-line phase. The main drawback of most of these techniques is that they do not work well in dynamic scenarios. In this paper we propose a new algorithm to update the Arc-Flags of a graph subject to edge weight decrease operations. To check the practical performances of the new algorithm we experimentally analyze it, along with a previously known algorithm for edge weight increase operations, on real-world road networks subject to fully dynamic sequences of operations. Our experiments show a significant speed-up in the updating phase of the Arc-Flags, at the cost of a small space and time overhead in the preprocessing phase
Enhance the Efficiency of Heuristic Algorithm for Maximizing Modularity Q
Modularity Q is an important function for identifying community structure in
complex networks. In this paper, we prove that the modularity maximization
problem is equivalent to a nonconvex quadratic programming problem. This result
provide us a simple way to improve the efficiency of heuristic algorithms for
maximizing modularity Q. Many numerical results demonstrate that it is very
effective.Comment: 9 pages, 3 figure
Size reduction of complex networks preserving modularity
The ubiquity of modular structure in real-world complex networks is being the
focus of attention in many trials to understand the interplay between network
topology and functionality. The best approaches to the identification of
modular structure are based on the optimization of a quality function known as
modularity. However this optimization is a hard task provided that the
computational complexity of the problem is in the NP-hard class. Here we
propose an exact method for reducing the size of weighted (directed and
undirected) complex networks while maintaining invariant its modularity. This
size reduction allows the heuristic algorithms that optimize modularity for a
better exploration of the modularity landscape. We compare the modularity
obtained in several real complex-networks by using the Extremal Optimization
algorithm, before and after the size reduction, showing the improvement
obtained. We speculate that the proposed analytical size reduction could be
extended to an exact coarse graining of the network in the scope of real-space
renormalization.Comment: 14 pages, 2 figure
Determining and interpreting correlations in lipidomic networks found in glioblastoma cells
Background: Intelligent and multitiered quantitative analysis of biological systems rapidly evolves to a key technique in studying biomolecular cancer aspects. Newly emerging advances in both measurement as well as bio-inspired computational techniques have facilitated the development of lipidomics technologies and offer an excellent opportunity to understand regulation at the molecular level in many diseases. Results: We present computational approaches to study the response of glioblastoma U87 cells to gene- and chemo-therapy. To identify distinct biomarkers and differences in therapeutic outcomes, we develop a novel technique based on graph-clustering. This technique facilitates the exploration and visualization of co-regulations in glioblastoma lipid profiling data. We investigate the changes in the correlation networks for different therapies and study the success of novel gene therapies targeting aggressive glioblastoma. Conclusions: The novel computational paradigm provides unique âfingerprintsâ by revealing the intricate interactions at the lipidome level in glioblastoma U87 cells with induced apoptosis (programmed cell death) and thus opens a new window to biomedical frontiers. Background Glioblastoma are highly invasive brain tumors. Th
Recent Advances in Graph Partitioning
We survey recent trends in practical algorithms for balanced graph
partitioning together with applications and future research directions
Effects of mesenchymal stromal cells versus serum on tendon healing in a controlled experimental trial in an equine model
Abstract Background Mesenchymal stromal cells (MSC) have shown promising results in the treatment of tendinopathy in equine medicine, making this therapeutic approach seem favorable for translation to human medicine. Having demonstrated that MSC engraft within the tendon lesions after local injection in an equine model, we hypothesized that they would improve tendon healing superior to serum injection alone. Methods Quadrilateral tendon lesions were induced in six horses by mechanical tissue disruption combined with collagenase application 3Â weeks before treatment. Adipose-derived MSC suspended in serum or serum alone were then injected intralesionally. Clinical examinations, ultrasound and magnetic resonance imaging were performed over 24Â weeks. Tendon biopsies for histological assessment were taken from the hindlimbs 3Â weeks after treatment. Horses were sacrificed after 24Â weeks and forelimb tendons were subjected to macroscopic and histological examination as well as analysis of musculoskeletal marker expression. Results Tendons injected with MSC showed a transient increase in inflammation and lesion size, as indicated by clinical and imaging parameters between week 3 and 6 (pâ<â0.05). Thereafter, symptoms decreased in both groups and, except that in MSC-treated tendons, mean lesion signal intensity as seen in T2w magnetic resonance imaging and cellularity as seen in the histology (pâ<â0.05) were lower, no major differences could be found at week 24. Conclusions These data suggest that MSC have influenced the inflammatory reaction in a way not described in tendinopathy studies before. However, at the endpoint of the current study, 24Â weeks after treatment, no distinct improvement was observed in MSC-treated tendons compared to the serum-injected controls. Future studies are necessary to elucidate whether and under which conditions MSC are beneficial for tendon healing before translation into human medicine
Localization and Characterization of STRO-1+ Cells in the Deer Pedicle and Regenerating Antler
The annual regeneration of deer antlers is a unique developmental event in mammals, which as a rule possess only a very limited capacity to regenerate lost appendages. Studying antler regeneration can therefore provide a deeper insight into the mechanisms that prevent limb regeneration in humans and other mammals, and, with regard to medical treatments, may possibly even show ways how to overcome these limitations. Traditionally, antler regeneration has been characterized as a process involving the formation of a blastema from de-differentiated cells. More recently it has, however, been hypothesized that antler regeneration is a stem cell-based process. Thus far, direct evidence for the presence of stem cells in primary or regenerating antlers was lacking. Here we demonstrate the presence of cells positive for the mesenchymal stem cell marker STRO-1 in the chondrogenic growth zone and the perivascular tissue of the cartilaginous zone in primary and regenerating antlers as well as in the pedicle of fallow deer (Dama dama). In addition, cells positive for the stem cell/progenitor cell markers STRO-1, CD133 and CD271 (LNGFR) were isolated from the growth zones of regenerating fallow deer antlers as well as the pedicle periosteum and cultivated for extended periods of time. We found evidence that STRO-1+ cells isolated from the different locations are able to differentiate in vitro along the osteogenic and adipogenic lineages. Our results support the view that the annual process of antler regeneration might depend on the periodic activation of mesenchymal progenitor cells located in the pedicle periosteum. The findings of the present study indicate that not only limited tissue regeneration, but also extensive appendage regeneration in a postnatal mammal can occur as a stem cell-based process
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