Publications

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Author Title Type [ Year(Asc)]
2015
D. Prat, Ortega, C., Casas, M., Moreto, M., and Valero, M., Adaptive and application dependent runtime guided hardware prefetcher reconfiguration on the IBM POWER7, 6th International Workshop on Adaptive Self-tuning Computing Systems. arXiv.org, Amsterdam, Netherlands, pp. 1–6, 2015.
S. Somajo, Ahnström, J., Fernandez-Recio, J., Gierula, M., Villoutreix, B. O., and Dahlbäck, B., Amino acid residues in the laminin G domains of protein S involved in tissue factor pathway inhibitor interaction., Thromb Haemost, vol. 113, no. 5. 2015.
P. Ferreira, Hernández-Ortega, A., Lucas, F., Carro, J., Herguedas, B., Borrelli, K. W., Guallar, V., Martínez, A. T., and Medina, M., Aromatic stacking interactions govern catalysis in aryl-alcohol oxidase, FEBS Journal. p. n/a–n/a, 2015.
J. Subirats and Guitart, J., Assessing and forecasting energy efficiency on Cloud computing platforms, Future Generation Computer Systems, vol. 45. pp. 70-94, 2015.
J. Juárez-Jiménez, Barril, X., Orozco, M., Pouplana, R., and Luque, J. F., Assessing the suitability of the multilevel strategy for the conformational analysis of small ligands., J Phys Chem B, vol. 119, no. 3. pp. 1164-72, 2015.
O. Castillo, de la Puente, J., Puzyrev, V., and Cela, J. M., Assessment of edge-based finite element technique for geophysical electromagnetic problems: efficiency, accuracy and reliability, Proceedings of the 1st Pan-American Congress on Computational Mechanics and XI Argentine Congress on Computational Mechanics. CIMNE, pp. 984-995, 2015.
D. Linde, Ruiz-Dueñas, F. J., Fernández-Fueyo, E., Guallar, V., Hammel, K. E., Pogni, R., and Martínez, A. T., Basidiomycete DyPs: Genomic diversity, structural–functional aspects, reaction mechanism and environmental significance, Archives of Biochemistry and Biophysics. p. -, 2015.
D. Linde, Ruiz-Dueñas, F. J., Fernández-Fueyo, E., Guallar, V., Hammel, K. E., Pogni, R., and Martínez, A. T., Basidiomycete DyPs: Genomic diversity, structural–functional aspects, reaction mechanism and environmental significance, Archives of Biochemistry and Biophysics. p. -, 2015.
I. H. Moal, Jiménez-García, B., and Fernandez-Recio, J., CCharPPI web server: computational characterization of protein-protein interactions from structure., Bioinformatics, vol. 31, no. 1. pp. 123-5, 2015.
L. Valentova, Gallovic, F., Ruzek, B., de la Puente, J., and Moczo, P., Choice of regularization in adjoint tomography based on 2D synthetic tests, Geophysical Journal International. 2015.
I. H. Moal and Fernandez-Recio, J., Comment on 'protein-protein binding affinity prediction from amino acid sequence'., Bioinformatics, vol. 31, no. 4. pp. 614-5, 2015.
P. Fuentes, Vallejo, E., Garcia, M., Beivide, R., Rodriguez, G., Minkenberg, C., and Valero, M., Contention-based Nonminimal Adaptive Routing in High-radix Networks, 29th IEEE International Parallel & Distributed Processing Symposium (IPDPS-2015). IEEE, India, 2015.
D. Mira, Zavala, M., Gövert, S., Kok, J., Vázquez, M., and Houzeaux, G., Coupling approach to account for heat losses in a practical combustor, 15th International Conference on Numerical Combustion. Avignon (F), 2015.
T. Cortes, Queralt, A., Martí, J., and Labarta, J., DataClay: Towards Usable and Shareable Storage, Big Data and Extreme-Scale Computing (BDEC). 2015.
V. Puzyrev, Gutierrez, N., Rodriguez, J. E., Hanzich, M., and de la Puente, J., Electromagnetic Modeling Using a Massively Parallel Software Framework, 77th EAGE Conference & Exhibition, Expanded Abstract. pp. Th-N112-15, 2015.
M. Hanzich, de la Puente, J., and Ortigosa, F., Geophysical Imaging in High-Performance Computing Platforms in Spain, in Industrial Applications of High-Performance Computing: Best Global Practices., Chapman and Hall/CRC Press, 2015.
Y. Gruver, Puzyrev, V., and de la Puente, J., Improving Hankel transform filters for parallel electromagnetic modeling tools, 77th EAGE Conference & Exhibition, Expanded Abstract. pp. We-P4-10, 2015.
V. J. Jiménez, Buyuktosunoglu, A., Bose, P., O’Connell, F., Cazorla, F. J., and Valero, M., Increasing Multicore System Efficiency through Intelligent Bandwidth Shifting, International Symposium on High- Performance Computer Architecture (HPCA). 2015.
I. H. Moal, Dapkūnas, J., and Fernandez-Recio, J., Inferring the microscopic surface energy of protein-protein interfaces from mutation data., Proteins, vol. 83, no. 4. pp. 640-50, 2015.
G. Fernandez, Abella, J., Quiñones, E., Fossati, L., Zulianello, M., Vardanega, T., and Cazorla, F. J., Introduction to Partial Time Composability for COTS Multicores, 230th ACM/SIGAPP Symposium On Applied Computing (SAC). 2015.
X. Rubio-Campillo, Large Simulations and Small Societies: High Performance Computing for Archaeological Simulations, in Agent-based Modeling and Simulation in Archaeology, Advances in Geographic Information Science., Springer, 2015, pp. 119–137.
C. Hernandez and Abella, J., Low-cost Checkpointing in Automotive Safety-Relevant Systems, 18th Design, Automation and Test in Europe Conference (DATE). 2015.
Í. Goiri, Haque, M. E., Le, K., Beauchea, R., Nguyen, T. D., Guitart, J., Torres, J., and Bianchini, R., Matching Renewable Energy Supply and Demand in Green Datacenters, Ad Hoc Networks, vol. 25. pp. 520-534, 2015.
A. Hosseini, Modeling protein dynamics and protein-drug interactions with Monte Carlo based techniques , 2015.
M. Garcia, Vallejo, E., Beivide, R., Camarero, C., Valero, M., Rodriguez, G., and Minkenberg, C., On-the-fly adaptive routing for dragonfly interconnection networks, The Journal of Supercomputing, vol. 71. Springer US, pp. 1116-1142, 2015.
R. Vargas, Quiñones, E., and Marongiu, A., OpenMP and Timing Predictability: A Possible Union?, 18th Design, Automation and Test in Europe Conference (DATE). 2015.
A. Jokanovic, Sancho, J. C., Rodríguez, G., Lucero, A., Minkenberg, C., and Labarta, J., Quiet Neighborhoods: Key to Protect Job Performance Predictability, 29th IEEE International Parallel & Distributed Processing Symposium (IPDPS-2015). IPDPS-2015, 2015.
F. Rubio, Hanzich, M., de la Puente, J., Farrès, A., Ferrer, M., and Thierry, P., Roofline-based Optimizations For Elastic Propagation On Xeon, 77th EAGE Conference & Exhibition, Expanded Abstract. pp. Th-N112-09, 2015.
C. Fenollosa, Otón, M., Andrio, P., Cortés, J., Orozco, M., and J Goñi, R., SEABED: Small molEcule activity scanner weB servicE baseD., Bioinformatics, vol. 31, no. 5. pp. 773-5, 2015.
S. Milutinovic, Abella, J., Hardy, D., Quiñones, E., Puaut, I., and Cazorla, F. J., Speeding up Static Probabilistic Timing Analysis, 28th GI/ITG International Conference on Architecture of Computing Systems (ARCS). 2015.
A. Arcella, Dreyer, J., Ippoliti, E., Ivani, I., Portella, G., Gabelica, V., Carloni, P., and Orozco, M., Structure and dynamics of oligonucleotides in the gas phase., Angew Chem Int Ed Engl, vol. 54, no. 2. pp. 467-71, 2015.
M. Yubero-Gómez, Rubio-Campillo, X., and López-Cachero, J., The study of spatiotemporal patterns integrating temporal uncertainty in late prehistoric settlements in northeastern Spain, Archaeological and Anthropological Sciences. Springer Berlin Heidelberg, pp. 1–14, 2015.
S. Martínez-Montero, Deleavey, G. F., Dierker-Viik, A., Lindovska, P., Ilina, T., Portella, G., Orozco, M., Parniak, M. A., González, C., and Damha, M. J., Synthesis and Properties of 2'-Deoxy-2',4'-difluoroarabinose-Modified Nucleic Acids., J Org Chem. 2015.
P. Radojkovic, Carpenter, P., Moreto, M., Cakarevic, V., Verdú, J., Pajuelo, A., Cazorla, F., Nemirovsky, M., and Valero, M., Thread Assignment in Multicore/Multithreaded Processors: A Statistical Approach, IEEE Transactions on Computers. 2015.
F. Wartel, Kosmidis, L., Gogonel, A., Baldovin, A., Stephenson, Z., Triquet, B., Quiñones, E., Lo, C., Mezzetti, E., Broster, I., Abella, J., Cucu-Grosjean, L., Vardanega, T., and Cazorla, F. J., Timing Analysis of an Avionics Case Study on Complex Hardware/Software Platforms, 18th Design, Automation and Test in Europe Conference (DATE). 2015.
C. Camarero, Vallejo, E., and Beivide, R., Topological Characterization of Hamming and Dragonfly Networks and Its Implications on Routing, 11th High Performance and Embedded Architecture and Compilation (HiPEAC-2015). ACM, Amsterdam, The Netherlands, 2015.
J. Gao, Orozco, M., and Peishoff, C. E., Tribute to William L. Jorgensen., J Phys Chem B, vol. 119, no. 3. pp. 621-3, 2015.
M. Kotev, Lecina, D., Tarragó, T., Giralt, E., and Guallar, V., Unveiling Prolyl Oligopeptidase Ligand Migration by Comprehensive Computational Techniques, Biophysical journal, vol. 108. Cell Press, pp. 116–125, 2015.
R. Molina, Stella, S., Redondo, P., Gomez, H., Marcaida, M. José, Orozco, M., Prieto, J., and Montoya, G., Visualizing phosphodiester-bond hydrolysis by an endonuclease., Nat Struct Mol Biol, vol. 22, no. 1. pp. 65-72, 2015.
C. Boehm, Fichtner, A., de la Puente, J., and Hanzich, M., Wavefield Compression for Full-Waveform Inversion, Geophysical Research Abstracts, vol. 17. EGU General Assembly, 2015.
M. Salpeteur, Patel, H., Balbo, A. L., Rubio-Campillo, X., Madella, M., Ajithprasad, P., and Reyes-García, V., When Knowledge Follows Blood: Kin Groups and the Distribution of Traditional Ecological Knowledge in a Community of Seminomadic Pastoralists, Gujarat (India), Current Anthropology, vol. 56. 2015.
2014
M. Ferrer, de la Puente, J., and Castillo, J. E., 3D Viscoelastic Anisotropic Seismic Modelling with High-Order Mimetic Finite Differences, International Conference on Spectral and High Order Methods (ICOSAHOM). June 23nd-27th, Salt Lake City, USA. 2014.
M. Casas and Bronevetsky, G., Active Measurement of Memory Resource Consumption, 28th IEEE International Parallel & Distributed Processing Symposium (IPDPS) . 2014.
M. Casas and Bronevetsky, G., Active Measurement of the Impact of Network Switch Utilization on Application Performance, 28th IEEE International Parallel & Distributed Processing Symposium (IPDPS). 2014.
J. Polo, Becerra, Y., Carrera, D., Torres, J., Ayguadé, E., and Steinder, M., Adaptive MapReduce Scheduling in Shared Environments, in 14th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing, Chicago, IL, United States, 2014, pp. 61–70.
V. Jimenez, Cazorla, F. J., Gioiosa, R., Buyuktosunoglu, A., Bose, P., O'Connell, F. P., and Mealey, B. G., Adaptive Prefetching on POWER7: Improving Performance and Power Consumption, ACM Trans. Parallel Comput., vol. 1. ACM, New York, NY, USA, pp. 4:1–4:25, 2014.
V. Garcia, Rico, A., Villavieja, C., Carpenter, P., Navarro, N., and Ramirez, A., Adaptive Runtime-Assisted Block Prefetching on Chip-Multiprocessors, Third International Workshop On-chip memory hierarchies and interconnects: organization, management and implementation. Springer International Publishing, Porto, Portugal, pp. 1888-1892, 2014.
J. de la Puente, Advanced Algorithms for the Modelling and Inversion of 3D Seismic and Electromagnetic Waves: An HPC Approach, M2OPIII 2014 – Third International Workshop on Multiphysics, Multiscale and Optimization Problems. May 22nd-23rd. Bilbao, Spain. 2014.
T. Hussain, Palomar, O., Unsal, O., Cristal, A., Ayguadé, E., and Valero, M., Advanced Pattern based Memory Controller for FPGA based HPC Applications, in International Conference on High Performance Computing {&} Simulation, HPCS 2014, Bologna, Italy, 2014, pp. 287–294.
C. Guirado, Cuevas, E., Cachorro, V. E., Toledano, C., Alonso-Pérez, S., Bustos, J. J., Basart, S., Romero, P. M., Camino, C., Mimouni, M., Zeudmi, L., Goloub, P., Baldasano, J. M., and de Frutos, A. M., Aerosol characterization at the Saharan AERONET site Tamanrasset, Atmospheric Chemistry and Physics, vol. 14. COPERNICUS GESELLSCHAFT MBH, GERMANY, pp. 11753–11773, 2014.

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