Computational Biology

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Mostrando 91 - 120 resultados de 186

2019

PhysiBoSS: a multi-scale agent-based modelling framework integrating physical dimension and cell signalling

Bioinformatics

G. Letort, A. Montagud, G. Stoll, R. Heiland, E. Barillot, P. Macklin, A. Zinovyev, and L. Calzone
On the inconsistent treatment of gene-protein-reaction rules in context-specific metabolic models

Bioinformatics

M. Ponce De Leon, I. Apaolaza, A. Valencia, and F. J. Planes
Patient Dossier: Healthcare queries over distributed resources

PLoS computational biology

M. Vázquez, and A. Valencia
The bio.tools registry of software tools and data resources for the life sciences

Genome Biology

J. Ison, H. Ienasescu, P. Chmura, E. Rydza, H. Ménager, M. Kalaš, V. Schwämmle, B. Grüning, N. Beard, R. Lopez, S. Duvaud, H. Stockinger, B. Persson, R. Svobodová Vařeková, T. Raček, J. Vondrášek, H. Peterson, A. Salumets, I. Jonassen, R. Hooft, T. Nyrönen, A. Valencia, S. Capella, J. Gelpí, F. Zambelli, B. Savakis, B. Leskošek, K. Rapacki, C. Blanchet, R. Jimenez, A. Oliveira, G. Vriend, O. Collin, J. van Helden, P. Løngreen, and S. Brunak
Precision medicine needs pioneering clinical bioinformaticians

Briefings in Bioinformatics

G. Gómez-López, J. Dopazo, J. C. Cigudosa, A. Valencia, and F. Al-Shahrour
Molecular Inverse Comorbidity between Alzheimer’s Disease and Lung Cancer: New Insights from Matrix Factorization

International Journal of Molecular Sciences

A. Greco, J. Sanchez Valle, V. Pancaldi, A. Baudot, E. Barillot, M. Caselle, A. Valencia, A. Zinovyev, and L. Cantini
Interactive Extreme: Scale Analytics Towards Battling Cancer

IEEE Technology and Society Magazine

N. Giatrakos, N. Katzouris, A. Deligiannakis, A. Artikis, M. Garofalakis, G. Paliouras, H. Arndt, R. Grasso, R. Klinkenberg, M. Ponce De Leon, G. Gaetano Tartaglia, A. Valencia, and D. Zissis
Association of Anorexia Nervosa With Risk of Cancer

JAMA Network Open

F. Catalá-López, J. Forés-Martos, J. A. Driver, M. J. Page, B. Hutton, M. Ridao, A. Alonso-Arroyo, D. Macías Saint-Gerons, R. Gènova-Maleras, J. M. Valderas, E. Vieta, A. Valencia, and R. Tabarés-Seisdedos
DNA methylation profiling of hepatosplenic T-cell lymphoma

Haematologica

A. K. Bergmann, V. Fataccioli, G. Castellano, N. Martin-Garcia, L. Pelletier, O. Ammerpohl, J. Bergmann, J. Bhat, E. Carrillo-d Pau, J. I. Martin-Subero, A. B. Moffitt, A. Valencia, H-H. Oberg, D. Wesch, S. Jayne, M. J. S. Dyer, D. Kabelitz, P. Gaulard, and R. Siebert
Transcriptomic metaanalyses of autistic brains reveals shared gene expression and biological pathway abnormalities with cancer

Molecular Autism

J. Forés-Martos, F. Catalá-López, J. Sánchez-Valle, K. Ibáñez, H. Tejero, H. Palma-Gudiel, J. Climent, V. Pancaldi, L. Fañanás, C. Arango, M. Parellada, A. Baudot, D. Vogt, J. L. Rubenstein, A. Valencia, and R. Tabarés-Seisdedos
Intronic CNVs and gene expression variation in human populations

PLOS Genetics

M. Rigau, D. Juan, A. Valencia, and D. Rico
Big data analytics for personalized medicine

Current Opinion in Biotechnology

D. Cirillo, and A. Valencia

2018

Aberrant ERBB4-SRC Signaling as a Hallmark of Group 4 Medulloblastoma Revealed by Integrative Phosphoproteomic Profiling

Cancer Cell

A. Forget, L. Martignetti, S. Puget, L. Calzone, S. Brabetz, D. Picard, A. Montagud, S. Liva, A. Sta, F. Dingli, G. Arras, J. Rivera, D. Loew, A. Besnard, J. Lacombe, M. Pagès, P. Varlet, C. Dufour, H. Yu, A. L. Mercier, E. Indersie, A. Chivet, S. Leboucher, L. Sieber, K. Beccaria, M. Gombert, F. D. Meyer, N. Qin, J. Bartl, L. Chavez, K. Okonechnikov, T. Sharma, V. Thatikonda, F. Bourdeaut, C. Pouponnot, V. Ramaswamy, A. Korshunov, A. Borkhardt, G. Reifenberger, P. Poullet, M. D. Taylor, M. Kool, S. M. Pfister, D. Kawauchi, E. Barillot, M. Remke, and O. Ayrault
The Immune Landscape of Cancer

Immunity

V. Thorsson, D. L. Gibbs, S. D. Brown, D. Wolf, D. S. Bortone, T-H. Ou Yang, E. Porta-Pardo, G. F. Gao, C. L. Plaisier, J. A. Eddy, et al.
Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics

Cell

L. Ding, M. H. Bailey, E. Porta-Pardo, V. Thorsson, A. Colaprico, D. Bertrand, D. L. Gibbs, A. Weerasinghe, K-lin. Huang, C. Tokheim, et al.
Comprehensive Characterization of Cancer Driver Genes and Mutations

Cell

M. H. Bailey, C. Tokheim, E. Porta-Pardo, S. Sengupta, D. Bertrand, A. Weerasinghe, A. Colaprico, M. C. Wendl, J. Kim, B. Reardon, et al.

2017

Inferring repeat-protein energetics from evolutionary information

PLOS Computational Biology

R. Espada, G. R. Parra, T. Mora, A. M. Walczak, and D. U. Ferreiro
Conceptual and computational framework for logical modelling of biological networks deregulated in diseases

Briefings in Bioinformatics

A. Montagud, P. Traynard, L. Martignetti, E. Bonnet, E. Barillot, A. Zinovyev, and L. Calzone
Four simple recommendations to encourage best practices in research software

F1000Research

R. C. Jiménez, M. Kuzak, M. Alhamdoosh, M. Barker, B. Batut, M. Borg, S. Capella-Gutierrez, N. Chue Hong, M. Cook, M. Corpas, M. Flannery, L. Garcia, J L. Gelpí, S. Gladman, C. Goble, M. González Ferreiro, A. Gonzalez-Beltran, P. C. Griffin, B. Grüning, J. Hagberg, P. Holub, R. Hooft, J. Ison, D. S. Katz, B. Leskošek, F. López Gómez, L. J. Oliveira, D. Mellor, R. Mosbergen, N. Mulder, Y. Perez-Riverol, R. Pergl, H. Pichler, B. Pope, F. Sanz, M. V. Schneider, V. Stodden, R. Suchecki, R. Svobodová Vařeková, H-A. Talvik, I. Todorov, A. Treloar, S. Tyagi, M. van Gompel, D. Vaughan, A. Via, X. Wang, N. S. Watson-Haigh, and S. Crouch
Automatic identification of informative regions with epigenomic changes associated to hematopoiesis

Nucleic Acids Research

E. Carrillo-de-Santa-Pau, D. Juan, V. Pancaldi, F. Were, I. Martin-Subero, D. Rico, and A. Valencia
Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types

Genome Biology

S. Ecker, L. Chen, V. Pancaldi, F. O. Bagger, J. María Fernández, E. Carrillo d Pau, D. Juan, A. L. Mann, S. Watt, F. Paolo Casale, N. Sidiropoulos, N. Rapin, A. Merkel, H. G. Stunnenberg, O. Stegle, M. Frontini, K. Downes, T. Pastinen, T. W. Kuijpers, D. Rico, A. Valencia, S. Beck, N. Soranzo, and D. S. Paul
Discovering the 3′ UTR-mediated regulation of alpha-synuclein

Nucleic Acids Research

D. Marchese, T. Botta-Orfila, D. Cirillo, J. Antonio Rodriguez, C. Maria Livi, R. Fernández-Santiago, M. Ezquerra, M. J. Martí, E. Bechara, and G. Gaetano Tartaglia
Epigenetic and Transcriptional Variability Shape Phenotypic Plasticity

BioEssays

S. Ecker, V. Pancaldi, A. Valencia, S. Beck, and D. S. Paul
Docking-based modeling of protein-protein interfaces for extensive structural and functional characterization of missense mutations

PLOS ONE

D. Barradas-Bautista, and J. Fernández-Recio
The Functional Impact of Alternative Splicing in Cancer

Cell Reports

H. Climente-González, E. Porta-Pardo, A. Godzik, and E. Eyras
Comparison of algorithms for the detection of cancer drivers at subgene resolution

Nature Methods

E. Porta-Pardo, A. Kamburov, D. Tamborero, T. Pons, D. Grases, A. Valencia, N. López-Bigas, G. Getz, and A. Godzik
APPRIS 2017: principal isoforms for multiple gene sets

Nucleic Acids Research

J. ManuelRodriguez, J. Rodriguez-Rivas, T. Di Domenico, J. Vázquez, A. Valencia, and M. L. Tress
Information Retrieval and Text Mining Technologies for Chemistry

Chemical Reviews

M. Krallinger, O. Rabal, A. Lourenço, J. Oyarzabal, and A. Valencia
Anorexia nervosa and cancer: a protocol for a systematic review and meta-analysis of observational studies

Systematic Reviews

F. Catalá-López, B. Hutton, J. A. Driver, M. Ridao, J. M. Valderas, R. Gènova-Maleras, J. Forés-Martos, A. Alonso-Arroyo, D. Macías Saint-Gerons, E. Vieta, A. Valencia, and R. Tabarés-Seisdedos
A molecular hypothesis to explain direct and inverse co-morbidities between Alzheimer’s Disease, Glioblastoma and Lung cancer

Scientific Reports

J. Sánchez-Valle, H. Tejero, K. Ibáñez, J. Luis Portero, M. Krallinger, F. Al-Shahrour, R. Tabarés-Seisdedos, A. Baudot, and A. Valencia

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