Publications

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Author Title Type [ Year(Asc)]
2011
G. Houzeaux, de la Cruz, R., Owen, H., and Vázquez, M., Parallel uniform mesh multiplication applied to a Navier-Stokes solver, Submitted to Computers & Fluids. 2011.
S. Isaza, Sánchez, F., Gaydadjiev, G. N., Ramirez, A., and Valero, M., Parameterizing Multicore Architectures for Multiple Sequence Alignment, 2011 International Conference on Computing Frontiers. 2011.
X. Sáez, Soba, A., Sánchez, E., Cela, J. M., and Castejón, F., Particle-In-Cell algorithms for Plasma simulations on heterogeneous architectures, Proceedings of the 19th Euromicro Conference on Parallel, Distributed and Network-based Processing (PDP). IEEE Computer Society, pp. 385-389, 2011.
R. Nou, Julià, F., Hogan, K., and Torres, J., Path to achieving a self-managed grid middleware, Future Generation Computer Systems, vol. 27. pp. 10–19, 2011.
T. Nakashima and Giménez, J., Performance Analysis and Optimization of A CFD Code on A Large-Scale Parallel Computer. ParCFD2011, Barcelona, Spain, 2011.
O. Deniz, Flores, O., Battistini, F., Pérez, A., Soler-López, M., and Orozco, M., Physical properties of naked DNA influence nucleosome positioning and correlate with transcription start and termination sites in yeast., BMC genomics, vol. 12. p. 489, 2011.
A. G. Foina, Planas, J., Badia, R. M., and Ramírez-Fernandez, F. J., P-Means, a Parallel Clustering Algorithm for a Heterogeneous Multi-Processor Environment, Proceedings of the HPCS 2011 . 2011.
J. M. Baldasano, Podem mesurar i modelitzar la qualitat de l'aire? Fiabilitat i perspectiva de millora, Jornada CECCP-RACC: "Qualitat de l'aire i transport viari a l'àrea de Barcelona. RACC, 2 May 2011. Barcelona, Spain, 2011.
F. J. Luque, Dehez,, Chipot, C., and Orozco, M., Polarization effects in molecular interactions. Wiley Interdisciplinary Reviews: Computational Molecular Science, n/a., 2011.
P. Bellens, Palaniappan, K., Badia, R. M., Seetharaman, G., and Labarta, J., A Portable Implementation of the Integral Histogram in StarSs, Proceedings of the SC11 conference. 2011.
J. Bueno, Duran, A., Martorell, X., Ayguadé, E., Badia, R. M., and Labarta, J., Poster: programming clusters of GPUs with OMPSs, Proceedings of the international conference on Supercomputing. ACM, New York, NY, USA, pp. 378–378, 2011.
J. Fernández-Recio, Prediction of protein binding sites and hot spots, WIREs Comput. Mol. Sci. , vol. 1. pp. 680-698, 2011.
C. Pons, Glaser, F., and Fernández-Recio, J., Prediction of protein-binding areas by small-world residue networks and application to docking., BMC bioinformatics, vol. 12. p. 378, 2011.
L. Margetts, McDonald, S., Lever, L. M., Calmet, H., Houzeaux, G., and Mummery, P. M., Predictive modelling of flow through porous microstructures, PARCFD2011. Barcelona (Spain), 2011.
C. Guirado, Cuevas, E., Cachorro, V. E., Mimouni, M., Zeudmi, L., Toledano, C., Alonso-Pérez, S., Basart, S., Blarel, L., Goloub, P., and Baldasano, J. M., Preliminary characterization of columnar aerosol properties (AOD-AE) at the Saharan Tamanrasset (Algeria) station, Journal Óptica Pura y Aplicada, vol. 44, no. 4. SPANISH OPTICAL SOCIETY, SPAIN, pp. 635-639, 2011.
J. Bueno, Martinell, L., Duran, A., Farreras, M., Martorell, X., Badia, R. M., Ayguadé, E., and Labarta, J., Productive Cluster Programming with OmpSs, Euro-Par 2011 Parallel Processing, vol. 6852. Springer Berlin / Heidelberg, pp. 555-566, 2011.
A. N. Naganathan and Orozco, M., The protein folding transition-state ensemble from a Gō-like model., Physical chemistry chemical physics : PCCP, vol. 13, no. 33. pp. 15166-74, 2011.
A. Solernou and Fernández-Recio, J., pyDockCG: new coarse-grained potential for protein-protein docking., The journal of physical chemistry. B, vol. 115, no. 19. pp. 6032-9, 2011.
G. Huhs, Quantenmechanik, in Quanten, Felder, Schwarze Löcher, Verlag der Technischen Universität Graz, 2011, pp. 41–59.
V. Subotic, Ferrer, R., Sancho, J. C., Labarta, J., and Valero, M., Quantifying the Potential Task-Based Dataflow Parallelism in MPI Applications, Euro-Par 2011 Parallel Processing, vol. 6852. Springer Berlin Heidelberg, pp. 39-51, 2011.
A. Morari, Gioiosa, R., Wisniewski, R., Cazorla, F., and Valero, M., A Quantitative Analysis of OS Noise. Anchorage (Alaska) USA, 2011.
S. Tomić, Cristal, A., Unsal, O., and Valero, M., Rapid Development of Error-Free Architectural Simulators using Dynamic Runtime Testing, 23rd International Symposium on Computer Architecture and High Performance Computing. Vitória, Espírito Santo, Brazil, 2011.
A. Soba, Bea, E., Houzeaux, G., Calmet, H., and Cela, J. M., Real space density functional theory and time depending density functional theory using finite/infinite element methods, Comput. Phys. Comm. 2011.
H. Owen, Houzeaux, G., Samaniego, C., and Vázquez, M., Recent ship hydrodynamics developments in the parallel two–fluid flow solver Alya, PARCFD2011. Barcelona (Spain), 2011.
T. Hussain, Pericàs, M., and Ayguadé, E., Reconfigurable Memory Controller with Programmable Pattern Support, 5th HiPEAC Workshop on Reconfigurable Computing (WRC 2011). Heraklion, Greece, pp. 55–64, 2011.
V. Daskalakis, Farantos, S. C., Guallar, V., and Varotsis, C., Regulation of electron and proton transfer by the protein matrix of cytochrome c oxidase., The journal of physical chemistry. B, vol. 115, no. 13. pp. 3648-55, 2011.
A. Miranda, Effert, S., Kang, Y., Miller, L., Brinkmann, A., and Cortes, T., Reliable and Randomized Data Distribution Strategies for Large Scale Storage Systems. 18th Annual International Conference on High Performance Computing (HiPC 2011), Bangalore, India, 2011.
A. Soba, Bea, E., and Houzeaux, G., Resolución de la ecuación de Khon-Sham mediante discretización del espacio real con elementos finitos e infinitos, AFA. Argentina, 2011.
J. Polo, Castillo, C., Carrera, D., Becerra, Y., Whalley, I., Steinder, M., Torres, J., and Ayguadé, E., Resource-aware Adaptive Scheduling for MapReduce Clusters, ACM/IFIP/USENIX 12th International Middleware Conference (Middleware 2011). Lisboa, Portugal, 2011.
G. Kestor, Karakostas, V., Unsal, O., Cristal, A., Hur, I., and Valero, M., RMS-TM: A Comprehensive Benchmark Suite for Transactional Memory Systems, International Conference on Performance Engineering (ICPE 2011). ACM, Karlsruhe, Germany, 2011.
J. Ejarque, Álvarez, J., Sirvent, R., and Badia, R. M., A Rule-based Approach for Infrastructure Providers' Interoperability, 2011 Third IEEE International Conference on Coud Computing Technology and Science. IEEE, pp. 272–279, 2011.
J. Abella, Quiñones, E., Cazorla, F., Sazeides, Y., and Valero, M., RVC: A Mechanism for Time-Analyzable Real-Time Processors with Faulty Caches. HiPEAC'11: 6th Int. Conference on High Performance and Embedded Architectures and Compilers, 2011.
J. Abella, Quiñones, E., Cazorla, F., Valero, M., and Sazeides, Y., RVC-based time-predictable faulty caches for safety-critical systems., IOLTS. IEEE, pp. 25-30, 2011.
C. Ciobanu, Martorell, X., Kuzmanov, G. K., Ramirez, A., and Gaydadjiev, G. N., Scalability Evaluation of a Polymorphic Register File: A CG Case Study, Architecture of Computing Systems - ARCS 2011. Springer-Verlag Berlin Heidelberg, pp. 13-25, 2011.
F. Sánchez, Cabarcas, F., Ramirez, A., and Valero, M., Scalable multicore architectures for long DNA sequence comparison, Concurrency and Computation Practice and Experience, vol. 23, no. 17. 2011.
X. Aguilar, Schliephake, M., Vahtras, O., Giménez, J., and Laure, E., Scaling Dalton, a molecular electronic structure program, Seventh International Conference on e-Science. 2011.
S. Isaza, Gaydadjiev, G. N., Sánchez, F., and Ramirez, A., Scaling HMMER Performance on Multicore Architectures, The Fifth International Conference on Complex, Intelligent, and Software Intensive Systems (CISIS-2011. 2011.
C. Pons, Talavera, D., de la Cruz, X., Orozco, M., and Fernández-Recio, J., Scoring by intermolecular pairwise propensities of exposed residues (SIPPER): a new efficient potential for protein-protein docking., Journal of chemical information and modeling, vol. 51, no. 2. pp. 370-7, 2011.
M. Sicard, Rocadenbosch, F., Reba, M. N. M., Comerón, A., Tomás, S., García-Vizcaino, D., Batet, O., Barrios, R., Kumar, D., and Baldasano, J. M., Seasonal variability of aerosol optical properties observed by means of a Raman lidar at an EARLINET site over Northeastern Spain, Atmospheric Chemistry and Physics, vol. 11. COPERNICUS GESELLSCHAFT MBH , GERMANY, pp. 175-190, 2011.
W. A. Sprigg, Baldasano, J. M., Zhang, X. - Y., and Nickovic, S., Serving society through the WMO Sand and Dust Storm Warning Advisory and Assessment System, Symposium on Advances in Geospatial Technologies for Health. ISPRS Commission VIII/WG-2, vol. XXXVIII-8/C23. International Society for Photogrammetry and Remote Sensing (ISPRS), Health, Santa Fe (NM USA), 11-14 September, 2011.
A. Rincón, Jorba, O., Baldasano, J. M., and Monache, D. L., Short-term irradiance forecasting based on post-processing tools applied on WRF meteorological simulations, 8th European Geosciences Union Conference (EGU) General Assembly. Geophysical Research Abstracts, vol. 13. European Geosciences Union (EGU), 3-8 April, 2011. Viena, Austria, 2011.
A. Folch, Houzeaux, G., and Vázquez, M., Simulació amb superordinadors del transport de contaminants, X Fòrum TIG SIG 2011. Barcelona (Spain), 2011.
J. González, Giménez, J., Casas, M., Moretó, M., Ramirez, A., Labarta, J., and Valero, M., Simulating Whole Supercomputer Applications, IEEE Micro, vol. 31. IEEE, pp. 32-45, 2011.
V. Subotic, Labarta, J., and Valero, M., Simulation environment to study overlapping of communication and computation. IEEE International Symposium on Performance Analysis of Systems and Software, 2011.
V. Subotic, Sancho, J. C., Labarta, J., and Valero, M., A simulation framework to automatically analyze the communication-computation overlap in scientific applications. IEEE International Conference on Cluster Computing, 2011.
M. Paolieri, Quiñones, E., Wolf, J., Petrov, Z., Cazorla, F., Uhrig, S., and Ungerer, T., A Software-Pipelined Approach to Multicore Execution of Timing Predictable Multi-Threaded Hard Real-Time Tasks. 14th IEEE International Symposium on Object/Component/Service-oriented Real-time Distributed Computing (ISORC 2011), 2011.
S. Marras, Vázquez, M., Jorba, O., Houzeaux, G., Folch, A., and Aubry, R., Solving Nonhydrostatic Dynamics with a variational multiscale Galerkin solver: Tests and parallel performance, IPAM-UCLA Workshop. Institute for Pure and Applied Mathematics (IPAM), LA, California, 2011.
R. Aubry, Houzeaux, G., and Vázquez, M., Some usefull strategies for unstructured edge-based solvers on shared memory machines, 49th AIAA Aerospace Sciences Meeting. Orlando (USA), 2011.
M. Avila, Principe, J., and Codina, R., Spatial approximation of the radiation transport equation using a subgrid-scale finite element method, Computer Methods in Applied Mechanics and Engineering, vol. 200. pp. 425-438, 2011.
G. Kestor, Gioiosa, R., Harris, T., Cristal, A., Unsal, O., Valero, M., and Hur, I., STM2: A Parallel STM for High Performance Simultaneous Multi-Threading Systems, The 20th IEEE International Conference on Parallel Architectures and Compilation Techniques (PACT). 2011.

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