Publications

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2021

ELIXIR‐EXCELERATE: establishing Europe's data infrastructure for the life science research of the future

The EMBO Journal

J. Harrow, J. Hancock, N. Blomberg, N. Blomberg, S. Brunak, S. Capella-Gutierrez, C. Durinx, C. T. Evelo, C. Goble, I. Gut, J. Ison, T. Keane, B. Leskošek, L. Matyska, J. McEntyre, C. Miguel, A. Navarro, S. Newhouse, T. Nyrönen, P. Palagi, B. Persson, C. Pommier, J. Rambla, M. Roos, G. Rustici, A. Smith, A. Valencia, C. van Gelder, J. Vondrášek, N. Peder Willassen, J. Arenas, H. Parkinson, R. D. Finn, S. Beltran, L. Matalonga, H. Hurst, P. Kersey, I. Lappalainen, P. Kahlem, G. Saunders, S. Sarntivijai, R. Drysdale, J. Tedds, J. Lanfear, and J. Harrow
A catalogue of 863 Rett-syndrome-causing MECP2 mutations and lessons learned from data integrationAbstract

Scientific Data

F. Ehrhart, A. Jacobsen, M. Rigau, M. Bosio, R. Kaliyaperumal, J. F. J. Laros, E. L. Willighagen, A. Valencia, M. Roos, S. Capella-Gutierrez, L. M. G. Curfs, and C. T. Evelo
COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms

Molecular Systems Biology

M. Ostaszewski, A. Niarakis, A. Mazein, I. Kuperstein, R. Phair, A. Orta‐Resendiz, V. Singh, S. Sadat Aghamiri, M. Luis Acencio, E. Glaab, et al.
Systems biology at the giga-scale: Large multiscale models of complex, heterogeneous multicellular systems

Current Opinion in Systems Biology

A. Montagud, M. Ponce-de-Leon, and A. Valencia
BioFVM-X: An MPI+OpenMP 3-D Simulator for Biological SystemsAbstract

Lecture Notes in Computer Science

G. Saxena, M. Ponce-de-Leon, A. Montagud, D. Vicente Dorca, and A. Valencia
COVID-19 Flow-Maps an open geographic information system on COVID-19 and human mobility for Spain

Scientific Data

M. Ponce De Leon, J. del Valle, J. Maria Fernández, M. Bernardo, D. Cirillo, J. Sánchez-Valle, M. Smith, S. Capella-Gutierrez, T. Gullón, and A. Valencia
DOME: recommendations for supervised machine learning validation in biology

Nature Methods

I. Walsh, D. Fishman, D. Garcia-Gasulla, T. Titma, G. Pollastri, E. Capriotti, R. Casadio, S. Capella-Gutierrez, D. Cirillo, A. Del Conte, A. C. Dimopoulos, V. Dominguez Del Angel, J. Dopazo, P. Fariselli, J. Maria Fernández, F. Huber, A. Kreshuk, T. Lenaerts, P. Luigi Martelli, A. Navarro, P. Ó. Broin, J. Piñero, D. Piovesan, M. Reczko, F. Ronzano, V. Satagopam, C. Savojardo, V. Spiwok, M. Antonio Tangaro, G. Tartari, D. Salgado, A. Valencia, F. Zambelli, J. Harrow, F. E. Psomopoulos, and S. C. E. Tosatto
MAX mutant small-cell lung cancers exhibit impaired activities of MGA-dependent noncanonical polycomb repressive complex

Proceedings of the National Academy of Sciences

P. Llabata, M. Torres-Diz, A. Gomez, L. Tomas-Daza, O. A. Romero, J. Grego-Bessa, P. Llinas-Arias, A. Valencia, M. Esteller, B. M. Javierre, X. Zhang, and M. Sanchez-Cespedes
Mutational mechanisms shaping the coding and noncoding genome of germinal center derived B-cell lymphomasAbstract

Leukemia

D. Hübschmann, K. Kleinheinz, R. Wagener, S. H. Bernhart, C. López, U. H. Toprak, S. Sungalee, N. Ishaque, H. Kretzmer, M. Kreuz, S. M. Waszak, N. Paramasivam, O. Ammerpohl, S. M. Aukema, R. Beekman, A. K. Bergmann, M. Bieg, H. Binder, A. Borkhardt, C. Borst, B. Brors, P. Bruns, E. Carrillo d Pau, A. Claviez, G. Doose, A. Haake, D. Karsch, S. Haas, M-L. Hansmann, J. I. Hoell, V. Hovestadt, B. Huang, M. Hummel, C. Jäger-Schmidt, J. N. A. Kerssemakers, J. O. Korbel, D. Kube, C. Lawerenz, D. Lenze, J. H. A. Martens, G. Ott, B. Radlwimmer, E. Reisinger, J. Richter, D. Rico, P. Rosenstiel, A. Rosenwald, M. Schillhabel, S. Stilgenbauer, P. F. Stadler, J. I. Martin-Subero, M. Szczepanowski, G. Warsow, M. A. Weniger, M. Zapatka, A. Valencia, H. G. Stunnenberg, P. Lichter, P. Möller, M. Loeffler, R. Eils, W. Klapper, S. Hoffmann, L. Trümper, R. Küppers, M. Schlesner, and R. Siebert
The eTRANSAFE Project on Translational Safety Assessment through Integrative Knowledge Management: Achievements and Perspectives

Pharmaceuticals

F. Pognan, T. Steger-Hartmann, C. Díaz, N. Blomberg, F. Bringezu, K. Briggs, G. Callegaro, S. Capella-Gutierrez, E. Centeno, J. Corvi, P. Drew, W. C. Drewe, J. M. Fernández, L. I. Furlong, E. Guney, J. A. Kors, M. Angel Mayer, M. Pastor, J. Piñero, J. Manuel Ramírez-Anguita, F. Ronzano, P. Rowell, J. Saüch-Pitarch, A. Valencia, B. van de Water, J. van der Lei, E. van Mulligen, and F. Sanz

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