Alfonso Valencia

2022

• ExTRI: Extraction of transcription regulation interactions from literature

  Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms

  M. Vazquez, M. Krallinger, F. Leitner, M. Kuiper, A. Valencia, and A. Laegreid
• Detection of oncogenic and clinically actionable mutations in cancer genomes critically depends on variant calling tools

  Bioinformatics

  C. A. Garcia-Prieto, F. Martínez-Jiménez, A. Valencia, and E. Porta-Pardo
• The structural coverage of the human proteome before and after AlphaFold

  PLoS computational biology

  E. Porta-Pardo, V. Ruiz-Serra, S. Valentini, and A. Valencia
• The structural coverage of the human proteome before and after AlphaFold

  PLoS computational biology

  E. Porta-Pardo, V. Ruiz-Serra, S. Valentini, and A. Valencia
• Digital biomarkers and sex impacts in Alzheimer’s disease management — potential utility for innovative 3P medicine approach

  EPMA Journal

  R. L. Harms, A. Ferrari, I. B. Meier, J. Martinkova, E. Santus, N. Marino, D. Cirillo, S. Mellino, S. Catuara Solarz, I. Tarnanas, C. Szoeke, J. Hort, A. Valencia, M. Teresa Ferretti, A. Seixas, and A. Santuccion Chadha
• Patient-specific Boolean models of signalling networks guide personalised treatments

  eLife

  A. Montagud, J. Béal, L. Tobalina, P. Traynard, V. Subramanian, B. Szalai, R. Alföldi, L. Puskás, A. Valencia, E. Barillot, J. Saez-Rodriguez, and L. Calzone

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